{ "examples": [ { "candidate_step": null, "clip_id": "DJI_16", "eval_id": "monstep_0001", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"pipette tips\",\"10 cm dish containing 293T cells\"],\"history\":[{\"step\":\"2\",\"tas\":12,\"tds\":6}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for delivering CRISPR components into 293T cells by mixing three reagents and adding the mixture to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\",\"293T cells In a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery", "state": { "equipment": [ "1.5 mL EP tube sterile", "pipette", "pipette tips", "10 cm dish containing 293T cells" ], "history": [ { "step": "2", "tas": 12, "tds": 6 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for delivering CRISPR components into 293T cells by mixing three reagents and adding the mixture to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3", "293T cells In a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add reagent 3 into the EP tube.", "task_type": "step_identification", "video_end": 15.5, "video_path": "videos640/DJI_16.mp4", "video_start": 12.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_11", "eval_id": "monstep_0002", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"step\":\"2\",\"tas\":21,\"tds\":9},{\"step\":\"3\",\"tas\":34,\"tds\":7}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "step": "2", "tas": 21, "tds": 9 }, { "step": "3", "tas": 34, "tds": 7 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Place the Invitrogen E-gel cassette into the E-gel power base.", "task_type": "step_identification", "video_end": 41.5, "video_path": "videos640/XM_11.mp4", "video_start": 34.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_02", "eval_id": "monstep_0003", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile eppendorf tube\"],\"history\":[{\"step\":\"1\",\"tas\":24,\"tds\":24},{\"step\":\"2\",\"tas\":45,\"tds\":21},{\"step\":\"3\",\"tas\":63,\"tds\":18},{\"step\":\"4\",\"tas\":98,\"tds\":35}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery via PEI Transfection", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile eppendorf tube" ], "history": [ { "step": "1", "tas": 24, "tds": 24 }, { "step": "2", "tas": 45, "tds": 21 }, { "step": "3", "tas": 63, "tds": 18 }, { "step": "4", "tas": 98, "tds": 35 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Gently rock the dish forward and backward to mix.", "task_type": "step_identification", "video_end": 140.5, "video_path": "videos640/DJI_02.mp4", "video_start": 128.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_33", "eval_id": "monstep_0004", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":6},{\"step\":\"2.1\",\"tas\":35,\"tds\":29}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen E-Gel iBase Power System", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "step": "1", "tas": 6, "tds": 6 }, { "step": "2.1", "tas": 35, "tds": 29 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Press the “Run” button on the E-gel power base to start electrophoresis.", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/DJI_33.mp4", "video_start": 38.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_33", "eval_id": "monstep_0005", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen E-Gel iBase Power System", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2.1", "target_step_text": "10 µL DNA sample", "task_type": "step_identification", "video_end": 35.5, "video_path": "videos640/DJI_33.mp4", "video_start": 5.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_09_CH", "eval_id": "monstep_0006", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Retrieve flask of cells to be passaged", "task_type": "step_identification", "video_end": 4.5, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_55_OUT", "eval_id": "monstep_0007", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Organize benchtop\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard spin column and close collection tube, and properly label\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Organize benchtop", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard spin column and close collection tube, and properly label", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Organize benchtop", "task_type": "step_identification", "video_end": 33.5, "video_path": "videos640/MV_02_55_OUT.mp4", "video_start": 22.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_06_HG", "eval_id": "monstep_0008", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Retrieve the 5 0.5mL centrifuge tubes", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/MV_03_06_HG.mp4", "video_start": 1.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_01_TD", "eval_id": "monstep_0009", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":53,\"tds\":53},{\"step\":\"2\",\"tas\":104,\"tds\":9},{\"step\":\"3\",\"tas\":127,\"tds\":0}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 53, "tds": 53 }, { "step": "2", "tas": 104, "tds": 9 }, { "step": "3", "tas": 127, "tds": 0 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Thaw DNA", "order": 2, "step": "2" }, { "desc": "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "order": 3, "step": "3" }, { "desc": "Add DNA substrate (Plasmid or PCR product) to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add DNA substrate (Plasmid or PCR product) to the tube", "task_type": "step_identification", "video_end": 265.5, "video_path": "videos640/MV_03_01_TD.mp4", "video_start": 220.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_16_HD", "eval_id": "monstep_0010", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":10,\"tds\":10},{\"step\":\"2\",\"tas\":25,\"tds\":15}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 10, "tds": 10 }, { "step": "2", "tas": 25, "tds": 15 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 44.5, "video_path": "videos640/MV_02_16_HD.mp4", "video_start": 27.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_31", "eval_id": "monstep_0011", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler\",\"Adjustable volume pipette\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice\"],\"history\":[{\"step\":\"2\",\"tas\":6,\"tds\":6},{\"step\":\"3\",\"tas\":12,\"tds\":5},{\"step\":\"4\",\"tas\":18,\"tds\":5}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler", "Adjustable volume pipette", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice" ], "history": [ { "step": "2", "tas": 6, "tds": 6 }, { "step": "3", "tas": 12, "tds": 5 }, { "step": "4", "tas": 18, "tds": 5 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction mixture by combining Master Mix, primers, template DNA, and water, followed by thermal cycling in a Bio-Rad T100 instrument.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "task_type": "step_identification", "video_end": 23.5, "video_path": "videos640/DJI_31.mp4", "video_start": 18.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_07", "eval_id": "monstep_0012", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"3\",\"tas\":30,\"tds\":24},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":51,\"tds\":3},{\"step\":\"6\",\"tas\":63,\"tds\":11},{\"step\":\"8\",\"tas\":97,\"tds\":33},{\"step\":\"9\",\"tas\":103,\"tds\":5},{\"step\":\"10\",\"tas\":114,\"tds\":10},{\"step\":\"11\",\"tas\":142,\"tds\":13}],\"objects\":{},\"on\":\"11\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Procedure", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "3", "tas": 30, "tds": 24 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 51, "tds": 3 }, { "step": "6", "tas": 63, "tds": 11 }, { "step": "8", "tas": 97, "tds": 33 }, { "step": "9", "tas": 103, "tds": 5 }, { "step": "10", "tas": 114, "tds": 10 }, { "step": "11", "tas": 142, "tds": 13 } ], "objects": {}, "on": "11", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "12", "target_step_text": "Add 5ml complete medium to dish", "task_type": "step_identification", "video_end": 172.5, "video_path": "videos640/DJI_07.mp4", "video_start": 142.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_28_HD", "eval_id": "monstep_0013", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"2\",\"tas\":37,\"tds\":8},{\"step\":\"3\",\"tas\":65,\"tds\":28}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "2", "tas": 37, "tds": 8 }, { "step": "3", "tas": 65, "tds": 28 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 108.067, "video_path": "videos640/MV_02_28_HD.mp4", "video_start": 106.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_45_RT", "eval_id": "monstep_0014", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "order": 1, "step": "1" }, { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "task_type": "step_identification", "video_end": 12.5, "video_path": "videos640/MV_02_45_RT.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_09_RT", "eval_id": "monstep_0015", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":1,\"tds\":1}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Mix thoroughly by vigorously inverting the sealed tube 4−6 times\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Set 1000 uL pipet to 350 uL\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 1, "tds": 1 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Mix thoroughly by vigorously inverting the sealed tube 4−6 times", "order": 1, "step": "1" }, { "desc": "Set 1000 uL pipet to 350 uL", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Set 1000 uL pipet to 350 uL", "task_type": "step_identification", "video_end": 27.5, "video_path": "videos640/MV_02_09_RT.mp4", "video_start": 6.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_11", "eval_id": "monstep_0016", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery Protocol", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add reagent 1 into a sterile 1.5 mL EP tube.", "task_type": "step_identification", "video_end": 23.5, "video_path": "videos640/DJI_11.mp4", "video_start": 0.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_37", "eval_id": "monstep_0017", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting and Filtration", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "task_type": "step_identification", "video_end": 14.5, "video_path": "videos640/XM_37.mp4", "video_start": 0.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_15_RF", "eval_id": "monstep_0018", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12},{\"step\":\"2\",\"tas\":23,\"tds\":11}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 12, "tds": 12 }, { "step": "2", "tas": 23, "tds": 11 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Collect 2nd 750uL of trypsin", "task_type": "step_identification", "video_end": 31.0, "video_path": "videos640/MV_01_15_RF.mp4", "video_start": 26.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_15_HD", "eval_id": "monstep_0019", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 12, "tds": 12 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispense into flask without touching any solid or liquid objects", "task_type": "step_identification", "video_end": 27.5, "video_path": "videos640/MV_01_15_HD.mp4", "video_start": 22.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_28", "eval_id": "monstep_0020", "operation": "Freeze_Cells_Right_1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"step\":\"1.1\",\"tas\":22,\"tds\":22}],\"objects\":{},\"on\":\"1.1\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Harvesting by Trypsinization", "state": { "equipment": [ "Petri dish Contains the cell culture", "Serological pipette Used for aspirating medium", "Micropipette Eppendorf brand used for adding reagents", "Centrifuge tube Used for collecting harvested cells", "Tube rack Blue rack holding reagent tubes" ], "history": [ { "step": "1.1", "tas": 22, "tds": 22 } ], "objects": {}, "on": "1.1", "protocol": [ { "desc": "Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.", "order": 1, "step": "1" }, { "desc": "Aspirate culture medium from the petri dish.", "order": 2, "step": "1.1" }, { "desc": "Add PBS wash buffer to the dish.", "order": 3, "step": "1.2" }, { "desc": "Swirl the dish to wash the cell monolayer.", "order": 4, "step": "1.3" }, { "desc": "Add trypsin solution to the dish to detach cells.", "order": 5, "step": "1.4" }, { "desc": "Collect the cell suspension into a centrifuge tube.", "order": 6, "step": "1.5" } ], "protocol_summary": "The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.", "reagents": [ "Culture medium Pink liquid in the petri dish", "PBS Visible in a tube labeled 'PBS 2X'", "Trypsin Visible in a tube labeled 'Tryp'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1.2", "target_step_text": "Add PBS wash buffer to the dish.", "task_type": "step_identification", "video_end": 39.5, "video_path": "videos640/XM_28.mp4", "video_start": 22.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_59", "eval_id": "monstep_0021", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"step\":\"1\",\"tas\":18,\"tds\":14},{\"step\":\"2\",\"tas\":88,\"tds\":70}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "step": "1", "tas": 18, "tds": 14 }, { "step": "2", "tas": 88, "tds": 70 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "task_type": "step_identification", "video_end": 94.5, "video_path": "videos640/DJI_59.mp4", "video_start": 88.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_62", "eval_id": "monstep_0022", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"6-well plate Contains producer cells and supernatant\"],\"history\":[{\"step\":\"1\",\"tas\":10,\"tds\":10},{\"step\":\"2\",\"tas\":45,\"tds\":35}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "6-well plate Contains producer cells and supernatant" ], "history": [ { "step": "1", "tas": 10, "tds": 10 }, { "step": "2", "tas": 45, "tds": 35 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This protocol describes the process of collecting viral supernatant from producer cells, filtering it to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "task_type": "step_identification", "video_end": 78.378, "video_path": "videos640/DJI_62.mp4", "video_start": 45.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_17", "eval_id": "monstep_0023", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "E. coli Transformation", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "task_type": "step_identification", "video_end": 33.5, "video_path": "videos640/DJI_17.mp4", "video_start": 0.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_15", "eval_id": "monstep_0024", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2.1\",\"tas\":18,\"tds\":13}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2.1", "tas": 18, "tds": 13 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them into an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "task_type": "step_identification", "video_end": 38.5, "video_path": "videos640/XM_15.mp4", "video_start": 25.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_37", "eval_id": "monstep_0025", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"step\":\"2\",\"tas\":40,\"tds\":35}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "step": "2", "tas": 40, "tds": 35 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "task_type": "step_identification", "video_end": 92.0, "video_path": "videos640/DJI_37.mp4", "video_start": 47.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_47_BL", "eval_id": "monstep_0026", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":64,\"tds\":7}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 64, "tds": 7 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "order": 1, "step": "1" }, { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "task_type": "step_identification", "video_end": 121.033, "video_path": "videos640/MV_02_47_BL.mp4", "video_start": 107.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_09", "eval_id": "monstep_0027", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"step\":\"1\",\"tas\":9,\"tds\":9}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette Pre-cast agarose gel cassette.", "E-gel power base Power supply and base for the E-gel cassette.", "Pipette Used to load samples into the gel wells.", "Pipette tips Disposable tips for the pipette." ], "history": [ { "step": "1", "tas": 9, "tds": 9 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.", "reagents": [ "DNA sample (10 µL) Prepared DNA sample for electrophoresis.", "DNA ladder (10 µL) Used as a size standard." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Load 10 µL of the prepared DNA sample into a well.", "task_type": "step_identification", "video_end": 22.5, "video_path": "videos640/XM_09.mp4", "video_start": 9.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_05_HG", "eval_id": "monstep_0028", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "task_type": "step_identification", "video_end": 134.0, "video_path": "videos640/MV_03_05_HG.mp4", "video_start": 89.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_23", "eval_id": "monstep_0029", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":15,\"tds\":10},{\"step\":\"3\",\"tas\":38,\"tds\":15},{\"step\":\"4\",\"tas\":72,\"tds\":29},{\"step\":\"5\",\"tas\":93,\"tds\":11},{\"step\":\"6\",\"tas\":124,\"tds\":20}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 15, "tds": 10 }, { "step": "3", "tas": 38, "tds": 15 }, { "step": "4", "tas": 72, "tds": 29 }, { "step": "5", "tas": 93, "tds": 11 }, { "step": "6", "tas": 124, "tds": 20 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Place the plate back into the incubator at the correct conditions.", "task_type": "step_identification", "video_end": 138.5, "video_path": "videos640/DJI_23.mp4", "video_start": 127.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_21", "eval_id": "monstep_0030", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Single-channel pipette used for reagent transfer.\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes.\",\"Tube racks Yellow and blue racks used to hold tubes.\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Mini centrifuge Used for a quick spin of the PCR tubes.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"step\":\"2\",\"tas\":53,\"tds\":53},{\"step\":\"7\",\"tas\":64,\"tds\":10},{\"step\":\"8\",\"tas\":71,\"tds\":3}],\"objects\":{},\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice during setup.\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.\",\"Ice Used to keep reagents cold during setup.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Single-channel pipette used for reagent transfer.", "Pipette tips", "PCR tubes 0.2 mL sterile tubes.", "Tube racks Yellow and blue racks used to hold tubes.", "Ice bucket Green ice bucket used to keep reagents cold.", "Mini centrifuge Used for a quick spin of the PCR tubes.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "step": "2", "tas": 53, "tds": 53 }, { "step": "7", "tas": 64, "tds": 10 }, { "step": "8", "tas": 71, "tds": 3 } ], "objects": {}, "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice during setup.", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.", "Ice Used to keep reagents cold during setup." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "10", "target_step_text": "Start the program.", "task_type": "step_identification", "video_end": 79.122, "video_path": "videos640/XM_21.mp4", "video_start": 72.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_23", "eval_id": "monstep_0031", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":20,\"tds\":15},{\"step\":\"3\",\"tas\":37,\"tds\":16},{\"step\":\"4\",\"tas\":47,\"tds\":9}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 20, "tds": 15 }, { "step": "3", "tas": 37, "tds": 16 }, { "step": "4", "tas": 47, "tds": 9 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "task_type": "step_identification", "video_end": 58.5, "video_path": "videos640/XM_23.mp4", "video_start": 47.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_06_LT", "eval_id": "monstep_0032", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Retrieve the 5 0.5mL centrifuge tubes", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/MV_03_06_LT.mp4", "video_start": 1.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_23", "eval_id": "monstep_0033", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "task_type": "step_identification", "video_end": 15.5, "video_path": "videos640/DJI_23.mp4", "video_start": 4.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_09_CH", "eval_id": "monstep_0034", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":4,\"tds\":4},{\"step\":\"2\",\"tas\":35,\"tds\":31}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 4, "tds": 4 }, { "step": "2", "tas": 35, "tds": 31 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "task_type": "step_identification", "video_end": 65.0, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 46.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_03", "eval_id": "monstep_0035", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"step\":\"1\",\"tas\":17,\"tds\":16}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery-Modified", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "step": "1", "tas": 17, "tds": 16 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add reagent 2 into the EP tube.", "task_type": "step_identification", "video_end": 30.5, "video_path": "videos640/DJI_03.mp4", "video_start": 17.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_25_RT", "eval_id": "monstep_0036", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":8,\"tds\":8},{\"step\":\"2\",\"tas\":13,\"tds\":5}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 8, "tds": 8 }, { "step": "2", "tas": 13, "tds": 5 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Retrieve spin column from centrifuge to rack", "task_type": "step_identification", "video_end": 96.5, "video_path": "videos640/MV_02_25_RT.mp4", "video_start": 87.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_04_LF", "eval_id": "monstep_0037", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":13,\"tds\":13},{\"step\":\"2\",\"tas\":32,\"tds\":19}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Sterilize reagents before placing in hood using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place sterile 15mL EP tube in hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Place sterile flask/plate in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 13, "tds": 13 }, { "step": "2", "tas": 32, "tds": 19 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Sterilize reagents before placing in hood using ethanol", "order": 1, "step": "1" }, { "desc": "Place sterile 15mL EP tube in hood", "order": 2, "step": "2" }, { "desc": "Place sterile flask/plate in hood", "order": 3, "step": "3" }, { "desc": "Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Place 200 uL, 1000uL, and 20uL pipettes on vent in front of hood", "task_type": "step_identification", "video_end": 64.0, "video_path": "videos640/MV_01_04_LF.mp4", "video_start": 52.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_24", "eval_id": "monstep_0038", "operation": "Serial_Dilution_Wrong", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"PCR tubes sterile\",\"pipette\",\"pipette tips\"],\"history\":[{\"step\":\"1\",\"tas\":2,\"tds\":2},{\"step\":\"2\",\"tas\":44,\"tds\":42},{\"step\":\"3\",\"tas\":68,\"tds\":24}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.\",\"reagents\":[\"original sample\",\"buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Protocol", "state": { "equipment": [ "PCR tubes sterile", "pipette", "pipette tips" ], "history": [ { "step": "1", "tas": 2, "tds": 2 }, { "step": "2", "tas": 44, "tds": 42 }, { "step": "3", "tas": 68, "tds": 24 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.", "reagents": [ "original sample", "buffer" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "task_type": "step_identification", "video_end": 119.0, "video_path": "videos640/XM_24.mp4", "video_start": 74.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_06", "eval_id": "monstep_0039", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":2},{\"step\":\"2\",\"tas\":10,\"tds\":7},{\"step\":\"3\",\"tas\":28,\"tds\":18},{\"step\":\"4\",\"tas\":38,\"tds\":7}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Protocol", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "step": "1", "tas": 3, "tds": 2 }, { "step": "2", "tas": 10, "tds": 7 }, { "step": "3", "tas": 28, "tds": 18 }, { "step": "4", "tas": 38, "tds": 7 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Place dish in biosafety cabinet", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/DJI_06.mp4", "video_start": 38.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_54", "eval_id": "monstep_0040", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"step\":\"2\",\"tas\":30,\"tds\":25},{\"step\":\"3\",\"tas\":43,\"tds\":12}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "step": "2", "tas": 30, "tds": 25 }, { "step": "3", "tas": 43, "tds": 12 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Incubate the mixture at room temperature for 15 minutes.", "task_type": "step_identification", "video_end": 79.5, "video_path": "videos640/DJI_54.mp4", "video_start": 65.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_46", "eval_id": "monstep_0041", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12},{\"step\":\"2\",\"tas\":30,\"tds\":18}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "step": "1", "tas": 12, "tds": 12 }, { "step": "2", "tas": 30, "tds": 18 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "task_type": "step_identification", "video_end": 75.5, "video_path": "videos640/DJI_46.mp4", "video_start": 30.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_40", "eval_id": "monstep_0042", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "task_type": "step_identification", "video_end": 14.5, "video_path": "videos640/XM_40.mp4", "video_start": 0.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_06_CH", "eval_id": "monstep_0043", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Open cell media bottle\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Attach 5mL pipet tip to pipette man", "order": 1, "step": "1" }, { "desc": "Open cell media bottle", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Open cell media bottle", "task_type": "step_identification", "video_end": 20.0, "video_path": "videos640/MV_01_06_CH.mp4", "video_start": 9.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_11", "eval_id": "monstep_0044", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"10 cm dish Contains 293T cells\",\"pipette\"],\"history\":[{\"step\":\"1\",\"tas\":23,\"tds\":23},{\"step\":\"2\",\"tas\":24,\"tds\":1},{\"step\":\"3\",\"tas\":38,\"tds\":14}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery Protocol", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "10 cm dish Contains 293T cells", "pipette" ], "history": [ { "step": "1", "tas": 23, "tds": 23 }, { "step": "2", "tas": 24, "tds": 1 }, { "step": "3", "tas": 38, "tds": 14 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture by combining three reagents in an EP tube, followed by incubation and dropwise addition to a cell culture dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Incubate at room temperature for 20 min.", "task_type": "step_identification", "video_end": 49.5, "video_path": "videos640/DJI_11.mp4", "video_start": 47.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_09_HD", "eval_id": "monstep_0045", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":4,\"tds\":4},{\"step\":\"2\",\"tas\":35,\"tds\":31}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 4, "tds": 4 }, { "step": "2", "tas": 35, "tds": 31 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "task_type": "step_identification", "video_end": 65.0, "video_path": "videos640/MV_01_09_HD.mp4", "video_start": 46.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_18", "eval_id": "monstep_0046", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Used for reagent addition\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Bio-Rad T100 Thermal Cycler Used for the PCR reaction\"],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) To reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Used for reagent addition", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Bio-Rad T100 Thermal Cycler Used for the PCR reaction" ], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) To reach a final volume of 25 μL" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 1 μL of Forward Primer (10 μM stock).", "task_type": "step_identification", "video_end": 18.5, "video_path": "videos640/XM_18.mp4", "video_start": 6.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_07", "eval_id": "monstep_0047", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"3\",\"tas\":30,\"tds\":24},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":51,\"tds\":3},{\"step\":\"6\",\"tas\":63,\"tds\":11}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Procedure", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "3", "tas": 30, "tds": 24 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 51, "tds": 3 }, { "step": "6", "tas": 63, "tds": 11 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "8", "target_step_text": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "task_type": "step_identification", "video_end": 97.5, "video_path": "videos640/DJI_07.mp4", "video_start": 63.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_51", "eval_id": "monstep_0048", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipettes Various volumes used for mix preparation and aliquoting.\",\"8-strip PCR tube Used for the final PCR reactions.\",\"1.5 mL Eppendorf tubes Used for mix preparation and LB broth.\",\"LB agar plate Source of colonies for PCR.\",\"Multichannel pipette Used for final mixing of colonies in PCR tubes.\"],\"history\":[{\"step\":\"2.1\",\"tas\":14,\"tds\":7},{\"step\":\"2.2\",\"tas\":22,\"tds\":7},{\"step\":\"3.1\",\"tas\":50,\"tds\":9},{\"step\":\"3.2\",\"tas\":58,\"tds\":7}],\"objects\":{},\"on\":\"3.2\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.\",\"reagents\":[\"Sterile H₂O Used for primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Colony PCR for 4 Reactions", "state": { "equipment": [ "Pipettes Various volumes used for mix preparation and aliquoting.", "8-strip PCR tube Used for the final PCR reactions.", "1.5 mL Eppendorf tubes Used for mix preparation and LB broth.", "LB agar plate Source of colonies for PCR.", "Multichannel pipette Used for final mixing of colonies in PCR tubes." ], "history": [ { "step": "2.1", "tas": 14, "tds": 7 }, { "step": "2.2", "tas": 22, "tds": 7 }, { "step": "3.1", "tas": 50, "tds": 9 }, { "step": "3.2", "tas": 58, "tds": 7 } ], "objects": {}, "on": "3.2", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "This protocol describes the preparation of a primer mix and PCR master mix, followed by colony picking and inoculation for a 4-reaction colony PCR setup.", "reagents": [ "Sterile H₂O Used for primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth with antibiotic (200 μL) Contained in 1.5 mL Eppendorf tubes for colony suspension." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3.3", "target_step_text": "30 μL of 2x PCR Master Mix", "task_type": "step_identification", "video_end": 70.5, "video_path": "videos640/DJI_51.mp4", "video_start": 60.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_09_HG", "eval_id": "monstep_0049", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Load mixed samples into the gel", "order": 1, "step": "1" }, { "desc": "Place the lid on the electrophoresis tank", "order": 2, "step": "2" }, { "desc": "Turn on the power supply and set to 110V", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Load mixed samples into the gel", "task_type": "step_identification", "video_end": 75.0, "video_path": "videos640/MV_03_09_HG.mp4", "video_start": 30.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_11", "eval_id": "monstep_0050", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\",\"Waste container Red bucket used for tip disposal\"],\"history\":[{\"step\":\"2\",\"tas\":21,\"tds\":9},{\"step\":\"3\",\"tas\":34,\"tds\":7},{\"step\":\"1\",\"tas\":41,\"tds\":6}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips", "Waste container Red bucket used for tip disposal" ], "history": [ { "step": "2", "tas": 21, "tds": 9 }, { "step": "3", "tas": 34, "tds": 7 }, { "step": "1", "tas": 41, "tds": 6 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of loading DNA samples and a ladder into an Invitrogen E-gel cassette and starting electrophoresis using an E-gel power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Press the “Run” button on the E-gel power base to start electrophoresis.", "task_type": "step_identification", "video_end": 46.926, "video_path": "videos640/XM_11.mp4", "video_start": 41.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_01", "eval_id": "monstep_0051", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\"],\"history\":[{\"step\":\"1\",\"tas\":8,\"tds\":7},{\"step\":\"2\",\"tas\":18,\"tds\":9}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler" ], "history": [ { "step": "1", "tas": 8, "tds": 7 }, { "step": "2", "tas": 18, "tds": 9 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add Reverse Primer (in the tube labeled R).", "task_type": "step_identification", "video_end": 32.5, "video_path": "videos640/XM_01.mp4", "video_start": 18.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_65", "eval_id": "monstep_0052", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"micropipette\",\"CO2 incubator Set to 37°C, 5% CO2.\",\"ice bucket Used for thawing virus.\"],\"history\":[{\"step\":\"3\",\"tas\":12,\"tds\":11},{\"step\":\"5\",\"tas\":39,\"tds\":27},{\"step\":\"2\",\"tas\":28,\"tds\":10},{\"step\":\"4\",\"tas\":33,\"tds\":5}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium.\",\"lentivirus suspension Added at desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains target cells.", "micropipette", "CO2 incubator Set to 37°C, 5% CO2.", "ice bucket Used for thawing virus." ], "history": [ { "step": "3", "tas": 12, "tds": 11 }, { "step": "5", "tas": 39, "tds": 27 }, { "step": "2", "tas": 28, "tds": 10 }, { "step": "4", "tas": 33, "tds": 5 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium.", "lentivirus suspension Added at desired MOI." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "task_type": "step_identification", "video_end": 56.5, "video_path": "videos640/DJI_65.mp4", "video_start": 44.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_42", "eval_id": "monstep_0053", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"step\":\"2\",\"tas\":21,\"tds\":17},{\"step\":\"3\",\"tas\":72,\"tds\":34},{\"step\":\"4\",\"tas\":111,\"tds\":38},{\"step\":\"5\",\"tas\":262,\"tds\":150},{\"step\":\"8\",\"tas\":289,\"tds\":22}],\"objects\":{},\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Colony PCR for 4 reactions", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "step": "2", "tas": 21, "tds": 17 }, { "step": "3", "tas": 72, "tds": 34 }, { "step": "4", "tas": 111, "tds": 38 }, { "step": "5", "tas": 262, "tds": 150 }, { "step": "8", "tas": 289, "tds": 22 } ], "objects": {}, "on": "8", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "9", "target_step_text": "Place the tube into the thermocycler.", "task_type": "step_identification", "video_end": 308.21, "video_path": "videos640/XM_42.mp4", "video_start": 289.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_16", "eval_id": "monstep_0054", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[{\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"step\":\"2.2\",\"tas\":25,\"tds\":9}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.", "pipette Adjustable volume micropipette.", "ice bucket Green ice bucket used for thawing samples.", "microtube Sterile microcentrifuge tube for mixing." ], "history": [ { "step": "2.1", "tas": 15, "tds": 10 }, { "step": "2.2", "tas": 25, "tds": 9 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA samples (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer.", "Invitrogen E-gel cassette Pre-cast agarose gel cassette." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "task_type": "step_identification", "video_end": 38.5, "video_path": "videos640/XM_16.mp4", "video_start": 32.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_13", "eval_id": "monstep_0055", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3}],\"objects\":{},\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar power base.", "pipette", "pipette tips", "microtube Sterile microtube for mixing." ], "history": [ { "step": "1", "tas": 3, "tds": 3 } ], "objects": {}, "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA samples (10 µL) Thaw on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Load 10–20 µL of the prepared DNA sample into a well.", "task_type": "step_identification", "video_end": 25.5, "video_path": "videos640/XM_13.mp4", "video_start": 7.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_42", "eval_id": "monstep_0056", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter.\",\"1.5 mL microcentrifuge tubes\",\"micropipette Used for aliquoting.\",\"biosafety cabinet TC hood.\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This protocol describes the collection and filtration of viral supernatant from producer cells, followed by aliquoting the filtered solution into microcentrifuge tubes for storage or further use.\",\"reagents\":[\"viral supernatant Collected from producer cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collection and Filtration", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter.", "1.5 mL microcentrifuge tubes", "micropipette Used for aliquoting.", "biosafety cabinet TC hood." ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This protocol describes the collection and filtration of viral supernatant from producer cells, followed by aliquoting the filtered solution into microcentrifuge tubes for storage or further use.", "reagents": [ "viral supernatant Collected from producer cells." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "task_type": "step_identification", "video_end": 5.5, "video_path": "videos640/DJI_42.mp4", "video_start": 0.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_37", "eval_id": "monstep_0057", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[{\"step\":\"2\",\"tas\":40,\"tds\":35},{\"step\":\"3\",\"tas\":98,\"tds\":57},{\"step\":\"4\",\"tas\":130,\"tds\":31},{\"step\":\"1\",\"tas\":130,\"tds\":16}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [ { "step": "2", "tas": 40, "tds": 35 }, { "step": "3", "tas": 98, "tds": 57 }, { "step": "4", "tas": 130, "tds": 31 }, { "step": "1", "tas": 130, "tds": 16 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add the transfection mi x dropwise to the HEK293T cells.", "task_type": "step_identification", "video_end": 155.5, "video_path": "videos640/DJI_37.mp4", "video_start": 130.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_15_HD", "eval_id": "monstep_0058", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12},{\"step\":\"2\",\"tas\":23,\"tds\":11}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 12, "tds": 12 }, { "step": "2", "tas": 23, "tds": 11 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Collect 2nd 750uL of trypsin", "task_type": "step_identification", "video_end": 31.0, "video_path": "videos640/MV_01_15_HD.mp4", "video_start": 26.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_40", "eval_id": "monstep_0059", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"step\":\"3\",\"tas\":14,\"tds\":13}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [ { "step": "3", "tas": 14, "tds": 13 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Gently swirl the plate to ensure even distribution.", "task_type": "step_identification", "video_end": 40.5, "video_path": "videos640/XM_40.mp4", "video_start": 33.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_22", "eval_id": "monstep_0060", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[{\"step\":\"1\",\"tas\":2,\"tds\":2},{\"step\":\"2\",\"tas\":12,\"tds\":10},{\"step\":\"3\",\"tas\":22,\"tds\":10}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [ { "step": "1", "tas": 2, "tds": 2 }, { "step": "2", "tas": 12, "tds": 10 }, { "step": "3", "tas": 22, "tds": 10 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "task_type": "step_identification", "video_end": 42.5, "video_path": "videos640/XM_22.mp4", "video_start": 31.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_48", "eval_id": "monstep_0061", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells\",\"micropipette Used for adding reagents and virus\",\"TC hood Laminar flow hood for sterile work\",\"incubator Standard culture conditions (37°C, 5% CO2)\"],\"history\":[],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium\",\"lentivirus suspension Added at desired MOI\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains target cells", "micropipette Used for adding reagents and virus", "TC hood Laminar flow hood for sterile work", "incubator Standard culture conditions (37°C, 5% CO2)" ], "history": [], "objects": {}, "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium", "lentivirus suspension Added at desired MOI" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "task_type": "step_identification", "video_end": 33.5, "video_path": "videos640/DJI_48.mp4", "video_start": 15.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_24", "eval_id": "monstep_0062", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator HERACELL VIOS 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"pipette controller Used with serological pipettes.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokines.\",\"6-well culture plate Contains the cell culture.\",\"inverted microscope EVOS M5000 imaging system.\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":6},{\"step\":\"2\",\"tas\":23,\"tds\":16},{\"step\":\"3\",\"tas\":43,\"tds\":19},{\"step\":\"4\",\"tas\":74,\"tds\":12}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the plate.\",\"cytokine(s) Added to the fresh medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokines to Cell Culture", "state": { "equipment": [ "CO2 incubator HERACELL VIOS 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "pipette controller Used with serological pipettes.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokines.", "6-well culture plate Contains the cell culture.", "inverted microscope EVOS M5000 imaging system." ], "history": [ { "step": "1", "tas": 6, "tds": 6 }, { "step": "2", "tas": 23, "tds": 16 }, { "step": "3", "tas": 43, "tds": 19 }, { "step": "4", "tas": 74, "tds": 12 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to cells in a 6-well plate, followed by microscopic inspection and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the plate.", "cytokine(s) Added to the fresh medium." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add cytokine(s) to the medium at the desired working concentration.", "task_type": "step_identification", "video_end": 90.5, "video_path": "videos640/DJI_24.mp4", "video_start": 81.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_09", "eval_id": "monstep_0063", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile microcentrifuge tube\",\"pipette\",\"10 cm dish Contains 293T cells\"],\"history\":[{\"step\":\"1\",\"tas\":35,\"tds\":18},{\"step\":\"2\",\"tas\":49,\"tds\":13},{\"step\":\"3\",\"tas\":64,\"tds\":14},{\"step\":\"4\",\"tas\":79,\"tds\":14},{\"step\":\"6\",\"tas\":89,\"tds\":9}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Cas9 Delivery", "state": { "equipment": [ "1.5 mL EP tube Sterile microcentrifuge tube", "pipette", "10 cm dish Contains 293T cells" ], "history": [ { "step": "1", "tas": 35, "tds": 18 }, { "step": "2", "tas": 49, "tds": 13 }, { "step": "3", "tas": 64, "tds": 14 }, { "step": "4", "tas": 79, "tds": 14 }, { "step": "6", "tas": 89, "tds": 9 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a transfection mixture using three reagents and its subsequent delivery to 293T cells in a 10 cm dish.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Gently rock the dish forward and backward to mix.", "task_type": "step_identification", "video_end": 100.1, "video_path": "videos640/DJI_09.mp4", "video_start": 89.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_16_HD", "eval_id": "monstep_0064", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "task_type": "step_identification", "video_end": 25.5, "video_path": "videos640/MV_02_16_HD.mp4", "video_start": 9.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_14", "eval_id": "monstep_0065", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"step\":\"2.2\",\"tas\":25,\"tds\":9},{\"step\":\"3\",\"tas\":28,\"tds\":2},{\"step\":\"4\",\"tas\":37,\"tds\":8}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "Micropipette", "Ice bucket Green container with ice" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2.1", "tas": 15, "tds": 10 }, { "step": "2.2", "tas": 25, "tds": 9 }, { "step": "3", "tas": 28, "tds": 2 }, { "step": "4", "tas": 37, "tds": 8 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Press the “Run” button on the E-gel power base to start electrophoresis.", "task_type": "step_identification", "video_end": 45.5, "video_path": "videos640/XM_14.mp4", "video_start": 38.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_07_HG", "eval_id": "monstep_0066", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "order": 2, "step": "2" }, { "desc": "Transfer 3 µL of Ladder to the microcentrifuge tube", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "task_type": "step_identification", "video_end": 49.0, "video_path": "videos640/MV_03_07_HG.mp4", "video_start": 4.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_42", "eval_id": "monstep_0067", "operation": "colony PCR", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.\",\"8-strip PCR tube For individual PCR reactions.\",\"pipette Various sizes including 10 uL and multichannel.\",\"LB agar plate Source of bacterial colonies.\",\"thermocycler For performing the PCR reaction.\"],\"history\":[{\"step\":\"2\",\"tas\":21,\"tds\":17},{\"step\":\"3\",\"tas\":72,\"tds\":34},{\"step\":\"4\",\"tas\":111,\"tds\":38},{\"step\":\"5\",\"tas\":262,\"tds\":150}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"16 μL sterile H₂O\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 μL Forward Primer (from 100 μM stock)\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"2 μL Reverse Primer (from 100 μM stock)\",\"order\":5,\"step\":\"2.3\"},{\"desc\":\"Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:\",\"order\":6,\"step\":\"3\"},{\"desc\":\"24 μL sterile H₂O\",\"order\":7,\"step\":\"3.1\"},{\"desc\":\"6 μL of the primer mix (prepared above)\",\"order\":8,\"step\":\"3.2\"},{\"desc\":\"30 μL of 2x PCR Master Mix\",\"order\":9,\"step\":\"3.3\"},{\"desc\":\"Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.\",\"order\":10,\"step\":\"4\"},{\"desc\":\"Using a 10 uL pipette tip, pick a single colony from the LB agar plate.\",\"order\":11,\"step\":\"5\"},{\"desc\":\"Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.\",\"order\":12,\"step\":\"6\"},{\"desc\":\"Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube\",\"order\":13,\"step\":\"7\"},{\"desc\":\"after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.\",\"order\":14,\"step\":\"8\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":15,\"step\":\"9\"}],\"protocol_summary\":\"Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.\",\"reagents\":[\"sterile H₂O Used in both primer mix and PCR mix preparation.\",\"Forward Primer (2 μL)\",\"Reverse Primer (2 μL)\",\"2x PCR Master Mix (30 μL)\",\"LB broth (200 μL) Contains appropriate antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Colony PCR for 4 reactions", "state": { "equipment": [ "1.5 mL Eppendorf tube Sterile tubes for mixes and LB broth.", "8-strip PCR tube For individual PCR reactions.", "pipette Various sizes including 10 uL and multichannel.", "LB agar plate Source of bacterial colonies.", "thermocycler For performing the PCR reaction." ], "history": [ { "step": "2", "tas": 21, "tds": 17 }, { "step": "3", "tas": 72, "tds": 34 }, { "step": "4", "tas": 111, "tds": 38 }, { "step": "5", "tas": 262, "tds": 150 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Thaw all reagents", "order": 1, "step": "1" }, { "desc": "Prepare a 10 μM primer mix. In a sterile 1.5 mL Eppendorf tube, add the following:", "order": 2, "step": "2" }, { "desc": "16 μL sterile H₂O", "order": 3, "step": "2.1" }, { "desc": "2 μL Forward Primer (from 100 μM stock)", "order": 4, "step": "2.2" }, { "desc": "2 μL Reverse Primer (from 100 μM stock)", "order": 5, "step": "2.3" }, { "desc": "Prepare the PCR mix. In a new sterile 1.5 mL Eppendorf tube, combine the following:", "order": 6, "step": "3" }, { "desc": "24 μL sterile H₂O", "order": 7, "step": "3.1" }, { "desc": "6 μL of the primer mix (prepared above)", "order": 8, "step": "3.2" }, { "desc": "30 μL of 2x PCR Master Mix", "order": 9, "step": "3.3" }, { "desc": "Aliquot 10 uL PCR mix into each well of 8-strip PCR tube.", "order": 10, "step": "4" }, { "desc": "Using a 10 uL pipette tip, pick a single colony from the LB agar plate.", "order": 11, "step": "5" }, { "desc": "Dip the pipette tip (with the picked colony) into a sterile 1.5 mL Eppendorf tube containing 200 μL of LB broth with the appropriate antibiotic.", "order": 12, "step": "6" }, { "desc": "Without changing the tip, immediately dispense the pipette tip into the colony PCR mix in the 8-strip PCR tube", "order": 13, "step": "7" }, { "desc": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "order": 14, "step": "8" }, { "desc": "Place the tube into the thermocycler.", "order": 15, "step": "9" } ], "protocol_summary": "Preparation of a primer mix and PCR master mix, followed by picking bacterial colonies from an agar plate to inoculate both LB broth and the PCR reaction mix for amplification.", "reagents": [ "sterile H₂O Used in both primer mix and PCR mix preparation.", "Forward Primer (2 μL)", "Reverse Primer (2 μL)", "2x PCR Master Mix (30 μL)", "LB broth (200 μL) Contains appropriate antibiotic." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "8", "target_step_text": "after all colonies are picked, use channel pipette to gently dispense the colony and discard tips.", "task_type": "step_identification", "video_end": 289.5, "video_path": "videos640/XM_42.mp4", "video_start": 266.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_57", "eval_id": "monstep_0068", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"pipette Used for adding reagents and mixing.\",\"CO2 incubator Used for cell culture incubation.\",\"6-well plate Used for cell culture in the video instead of a 10 cm dish.\"],\"history\":[{\"step\":\"2\",\"tas\":65,\"tds\":62}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentivirus Packaging and Transfection of HEK293T Cells", "state": { "equipment": [ "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "pipette Used for adding reagents and mixing.", "CO2 incubator Used for cell culture incubation.", "6-well plate Used for cell culture in the video instead of a 10 cm dish." ], "history": [ { "step": "2", "tas": 65, "tds": 62 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "task_type": "step_identification", "video_end": 106.5, "video_path": "videos640/DJI_57.mp4", "video_start": 71.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_29", "eval_id": "monstep_0069", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Microcentrifuge Used for a quick spin of the PCR tube.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Ice bucket Green ice bucket used to keep reagents cold.", "Microcentrifuge Used for a quick spin of the PCR tube.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 1 μL of Forward Primer (10 μM stock).", "task_type": "step_identification", "video_end": 24.5, "video_path": "videos640/DJI_29.mp4", "video_start": 11.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_13_RT", "eval_id": "monstep_0070", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":69,\"tds\":69},{\"step\":\"2\",\"tas\":84,\"tds\":15}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 69, "tds": 69 }, { "step": "2", "tas": 84, "tds": 15 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 103.5, "video_path": "videos640/MV_02_13_RT.mp4", "video_start": 86.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_53", "eval_id": "monstep_0071", "operation": "iPSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"incubator\",\"multichannel pipette\",\"single-channel pipette\",\"96-well plate Contains iPSC-fibroblast cells\",\"marker\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"haw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting iPSC-fibroblast cells with lentivirus, including plate retrieval, virus addition, and incubation.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 Purified lentivirus\",\"control lentivirus\",\"infection medium Fresh medium for replacement if needed\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "iPSC-Fibroblast Harvest and Lysis with QuickExtract", "state": { "equipment": [ "incubator", "multichannel pipette", "single-channel pipette", "96-well plate Contains iPSC-fibroblast cells", "marker" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "haw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting iPSC-fibroblast cells with lentivirus, including plate retrieval, virus addition, and incubation.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 Purified lentivirus", "control lentivirus", "infection medium Fresh medium for replacement if needed" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "task_type": "step_identification", "video_end": 9.5, "video_path": "videos640/DJI_53.mp4", "video_start": 2.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_22", "eval_id": "monstep_0072", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler Bio-Rad T100 Thermal Cycler\",\"Ice bucket Green ice bucket containing reagents\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler Bio-Rad T100 Thermal Cycler", "Ice bucket Green ice bucket containing reagents" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a 25 μL PCR reaction by combining Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "task_type": "step_identification", "video_end": 2.5, "video_path": "videos640/XM_22.mp4", "video_start": 0.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_11_HD", "eval_id": "monstep_0073", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":0,\"tds\":0}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 0, "tds": 0 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Attach 5mL pipet tip to pipette man", "task_type": "step_identification", "video_end": 6.5, "video_path": "videos640/MV_01_11_HD.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_49_RT", "eval_id": "monstep_0074", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":11,\"tds\":11}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 11, "tds": 11 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Place apprpriate spin column in collection tube", "order": 1, "step": "1" }, { "desc": "Apply 0.050 mL Buffer EB (Elution)", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 4, "step": "4" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 66.5, "video_path": "videos640/MV_02_49_RT.mp4", "video_start": 52.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_44", "eval_id": "monstep_0075", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "task_type": "step_identification", "video_end": 17.5, "video_path": "videos640/XM_44.mp4", "video_start": 0.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_26", "eval_id": "monstep_0076", "operation": "RNA_Extraction_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette Used for aspirating, washing, and transferring\",\"pipette tips\",\"1.5 mL microcentrifuge tube RNase-free\",\"cell culture dish Contains the cells being processed\",\"marker pen Used for labeling tubes\"],\"history\":[{\"step\":\"1\",\"tas\":26,\"tds\":11}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Aspirate and discard the culture medium from the cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash the cells once with 1 mL sterile PBS to remove residual medium.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette up and down 5–10 times to lyse and homogenize the cells completely.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.\",\"reagents\":[\"PBS (1 mL) Used for washing cells\",\"RNA lysis buffer (500 µL) Added directly to cells for lysis\",\"70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "RNA Extraction - Cell Lysis and Homogenization", "state": { "equipment": [ "pipette Used for aspirating, washing, and transferring", "pipette tips", "1.5 mL microcentrifuge tube RNase-free", "cell culture dish Contains the cells being processed", "marker pen Used for labeling tubes" ], "history": [ { "step": "1", "tas": 26, "tds": 11 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Aspirate and discard the culture medium from the cells.", "order": 1, "step": "1" }, { "desc": "Wash the cells once with 1 mL sterile PBS to remove residual medium.", "order": 2, "step": "2" }, { "desc": "Add 500 µL of RNA lysis buffer directly onto the cells in the dish.", "order": 3, "step": "3" }, { "desc": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "order": 4, "step": "4" }, { "desc": "Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.", "order": 5, "step": "5" }, { "desc": "Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.", "reagents": [ "PBS (1 mL) Used for washing cells", "RNA lysis buffer (500 µL) Added directly to cells for lysis", "70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "task_type": "step_identification", "video_end": 59.5, "video_path": "videos640/XM_26.mp4", "video_start": 34.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_01", "eval_id": "monstep_0077", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\"],\"history\":[{\"step\":\"1\",\"tas\":8,\"tds\":7}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler" ], "history": [ { "step": "1", "tas": 8, "tds": 7 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add Forward Primer (in the tube labeled F).", "task_type": "step_identification", "video_end": 18.5, "video_path": "videos640/XM_01.mp4", "video_start": 8.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_53", "eval_id": "monstep_0078", "operation": "iPSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"incubator\",\"multichannel pipette\",\"single-channel pipette\",\"96-well plate Contains iPSC-fibroblast cells\",\"marker\"],\"history\":[{\"step\":\"2\",\"tas\":9,\"tds\":6}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"haw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting iPSC-fibroblast cells with lentivirus, including plate retrieval, virus addition, and incubation.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 Purified lentivirus\",\"control lentivirus\",\"infection medium Fresh medium for replacement if needed\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "iPSC-Fibroblast Harvest and Lysis with QuickExtract", "state": { "equipment": [ "incubator", "multichannel pipette", "single-channel pipette", "96-well plate Contains iPSC-fibroblast cells", "marker" ], "history": [ { "step": "2", "tas": 9, "tds": 6 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "haw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting iPSC-fibroblast cells with lentivirus, including plate retrieval, virus addition, and incubation.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 Purified lentivirus", "control lentivirus", "infection medium Fresh medium for replacement if needed" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "(Optional) Replace culture medium with fresh infection medium as needed.", "task_type": "step_identification", "video_end": 122.0, "video_path": "videos640/DJI_53.mp4", "video_start": 77.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_06", "eval_id": "monstep_0079", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":2},{\"step\":\"2\",\"tas\":10,\"tds\":7},{\"step\":\"3\",\"tas\":28,\"tds\":18},{\"step\":\"4\",\"tas\":38,\"tds\":7},{\"step\":\"5\",\"tas\":46,\"tds\":7},{\"step\":\"6\",\"tas\":62,\"tds\":7},{\"step\":\"7\",\"tas\":85,\"tds\":23}],\"objects\":{},\"on\":\"8\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Protocol", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "step": "1", "tas": 3, "tds": 2 }, { "step": "2", "tas": 10, "tds": 7 }, { "step": "3", "tas": 28, "tds": 18 }, { "step": "4", "tas": 38, "tds": 7 }, { "step": "5", "tas": 46, "tds": 7 }, { "step": "6", "tas": 62, "tds": 7 }, { "step": "7", "tas": 85, "tds": 23 } ], "objects": {}, "on": "8", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "9", "target_step_text": "Gently rock dish to wash cell surface", "task_type": "step_identification", "video_end": 93.5, "video_path": "videos640/DJI_06.mp4", "video_start": 87.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_17", "eval_id": "monstep_0080", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[{\"step\":\"1\",\"tas\":1,\"tds\":1},{\"step\":\"2\",\"tas\":29,\"tds\":28},{\"step\":\"4\",\"tas\":46,\"tds\":16},{\"step\":\"3\",\"tas\":52,\"tds\":5}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Used to run the E-gel electrophoresis.", "pipette", "ice bucket Green container holding samples on ice." ], "history": [ { "step": "1", "tas": 1, "tds": 1 }, { "step": "2", "tas": 29, "tds": 28 }, { "step": "4", "tas": 46, "tds": 16 }, { "step": "3", "tas": 52, "tds": 5 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Press the “Run” button on the E-gel power base to start electrophoresis.", "task_type": "step_identification", "video_end": 62.058, "video_path": "videos640/XM_17.mp4", "video_start": 52.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_17", "eval_id": "monstep_0081", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[{\"step\":\"1\",\"tas\":1,\"tds\":1},{\"step\":\"2\",\"tas\":29,\"tds\":28}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Used to run the E-gel electrophoresis.", "pipette", "ice bucket Green container holding samples on ice." ], "history": [ { "step": "1", "tas": 1, "tds": 1 }, { "step": "2", "tas": 29, "tds": 28 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Load 10–20 µL of the prepared DNA sample into a well.", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/XM_17.mp4", "video_start": 29.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_37", "eval_id": "monstep_0082", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tube for mixing plasmids and reagents.\",\"10 cm dish Cell culture dish containing HEK293T cells.\",\"pipette Used for precise volume transfers.\",\"incubator Used for cell culture and incubation of the transfection complex.\",\"biosafety cabinet TC hood for sterile work.\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency in a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium Used to bring the volume up to 300 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube Sterile tube for mixing plasmids and reagents.", "10 cm dish Cell culture dish containing HEK293T cells.", "pipette Used for precise volume transfers.", "incubator Used for cell culture and incubation of the transfection complex.", "biosafety cabinet TC hood for sterile work." ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency in a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium Used to bring the volume up to 300 µL." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "task_type": "step_identification", "video_end": 40.5, "video_path": "videos640/DJI_37.mp4", "video_start": 4.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_59", "eval_id": "monstep_0083", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "task_type": "step_identification", "video_end": 18.5, "video_path": "videos640/DJI_59.mp4", "video_start": 3.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_50_OUT", "eval_id": "monstep_0084", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":14,\"tds\":14},{\"step\":\"2\",\"tas\":27,\"tds\":13}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 14, "tds": 14 }, { "step": "2", "tas": 27, "tds": 13 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Place apprpriate spin column in collection tube", "order": 1, "step": "1" }, { "desc": "Apply 0.050 mL Buffer EB (Elution)", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 4, "step": "4" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 115.5, "video_path": "videos640/MV_02_50_OUT.mp4", "video_start": 113.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_02", "eval_id": "monstep_0085", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"pipette\",\"microcentrifuge\",\"thermocycler\"],\"history\":[{\"step\":\"1\",\"tas\":9,\"tds\":9},{\"step\":\"2\",\"tas\":18,\"tds\":9},{\"step\":\"3\",\"tas\":24,\"tds\":6}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "pipette", "microcentrifuge", "thermocycler" ], "history": [ { "step": "1", "tas": 9, "tds": 9 }, { "step": "2", "tas": 18, "tds": 9 }, { "step": "3", "tas": 24, "tds": 6 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by mixing, centrifugation, and loading into a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/XM_02.mp4", "video_start": 32.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_07", "eval_id": "monstep_0086", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Procedure", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "step": "1", "tas": 5, "tds": 5 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Spray all materials with 70% ethanol before placing in hood", "task_type": "step_identification", "video_end": 30.5, "video_path": "videos640/DJI_07.mp4", "video_start": 5.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_07_LF", "eval_id": "monstep_0087", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":11,\"tds\":11}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 11, "tds": 11 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispose of 5mL pipet tip", "task_type": "step_identification", "video_end": 32.0, "video_path": "videos640/MV_01_07_LF.mp4", "video_start": 25.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_30", "eval_id": "monstep_0088", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"step\":\"1\",\"tas\":2,\"tds\":2},{\"step\":\"2\",\"tas\":11,\"tds\":9},{\"step\":\"3\",\"tas\":23,\"tds\":11},{\"step\":\"4\",\"tas\":33,\"tds\":9},{\"step\":\"5\",\"tas\":44,\"tds\":10},{\"step\":\"6\",\"tas\":54,\"tds\":9},{\"step\":\"7\",\"tas\":70,\"tds\":15},{\"step\":\"8\",\"tas\":77,\"tds\":6}],\"objects\":{},\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "step": "1", "tas": 2, "tds": 2 }, { "step": "2", "tas": 11, "tds": 9 }, { "step": "3", "tas": 23, "tds": 11 }, { "step": "4", "tas": 33, "tds": 9 }, { "step": "5", "tas": 44, "tds": 10 }, { "step": "6", "tas": 54, "tds": 9 }, { "step": "7", "tas": 70, "tds": 15 }, { "step": "8", "tas": 77, "tds": 6 } ], "objects": {}, "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "9", "target_step_text": "Program the cycler or load pre-configured program:", "task_type": "step_identification", "video_end": 83.5, "video_path": "videos640/DJI_30.mp4", "video_start": 77.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_27", "eval_id": "monstep_0089", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"step\":\"2\",\"tas\":48,\"tds\":48},{\"step\":\"7\",\"tas\":70,\"tds\":21},{\"step\":\"8\",\"tas\":78,\"tds\":7}],\"objects\":{},\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume micropipette", "Pipette tips Disposable plastic tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice for reagent stability", "Microcentrifuge Small benchtop centrifuge for quick spins", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "step": "2", "tas": 48, "tds": 48 }, { "step": "7", "tas": 70, "tds": 21 }, { "step": "8", "tas": 78, "tds": 7 } ], "objects": {}, "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "9", "target_step_text": "Program the cycler or load pre-configured program:", "task_type": "step_identification", "video_end": 88.5, "video_path": "videos640/DJI_27.mp4", "video_start": 78.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_16_HD", "eval_id": "monstep_0090", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add 0.350 mL of chilled Buffer N3", "task_type": "step_identification", "video_end": 10.5, "video_path": "videos640/MV_02_16_HD.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_04", "eval_id": "monstep_0091", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips in a box\",\"PCR tubes 0.2 mL sterile tubes\",\"Tube rack Green and blue racks for holding tubes\",\"Thermocycler Instrument for PCR amplification\"],\"history\":[{\"step\":\"1\",\"tas\":9,\"tds\":9},{\"step\":\"2\",\"tas\":18,\"tds\":8},{\"step\":\"3\",\"tas\":27,\"tds\":8}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips in a box", "PCR tubes 0.2 mL sterile tubes", "Tube rack Green and blue racks for holding tubes", "Thermocycler Instrument for PCR amplification" ], "history": [ { "step": "1", "tas": 9, "tds": 9 }, { "step": "2", "tas": 18, "tds": 8 }, { "step": "3", "tas": 27, "tds": 8 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add template DNA (in the tube labeled T).", "task_type": "step_identification", "video_end": 37.5, "video_path": "videos640/XM_04.mp4", "video_start": 27.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_02_LT", "eval_id": "monstep_0092", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":87,\"tds\":87},{\"step\":\"2\",\"tas\":127,\"tds\":38}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 1.0 µL of Enzyme 1 to the reaction\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 1.0 µL of Enzyme 2 to the reaction\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 10X Restriction Enzyme Buffer to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 87, "tds": 87 }, { "step": "2", "tas": 127, "tds": 38 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 1.0 µL of Enzyme 1 to the reaction", "order": 1, "step": "1" }, { "desc": "Add 1.0 µL of Enzyme 2 to the reaction", "order": 2, "step": "2" }, { "desc": "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "order": 3, "step": "3" }, { "desc": "Add 10X Restriction Enzyme Buffer to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "task_type": "step_identification", "video_end": 220.5, "video_path": "videos640/MV_03_02_LT.mp4", "video_start": 184.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_07", "eval_id": "monstep_0093", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"3\",\"tas\":30,\"tds\":24},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":51,\"tds\":3},{\"step\":\"6\",\"tas\":63,\"tds\":11},{\"step\":\"8\",\"tas\":97,\"tds\":33},{\"step\":\"9\",\"tas\":103,\"tds\":5},{\"step\":\"10\",\"tas\":114,\"tds\":10},{\"step\":\"11\",\"tas\":142,\"tds\":13},{\"step\":\"12\",\"tas\":172,\"tds\":29}],\"objects\":{},\"on\":\"12\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Procedure", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "3", "tas": 30, "tds": 24 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 51, "tds": 3 }, { "step": "6", "tas": 63, "tds": 11 }, { "step": "8", "tas": 97, "tds": 33 }, { "step": "9", "tas": 103, "tds": 5 }, { "step": "10", "tas": 114, "tds": 10 }, { "step": "11", "tas": 142, "tds": 13 }, { "step": "12", "tas": 172, "tds": 29 } ], "objects": {}, "on": "12", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "14", "target_step_text": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "task_type": "step_identification", "video_end": 182.5, "video_path": "videos640/DJI_07.mp4", "video_start": 172.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_39", "eval_id": "monstep_0094", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"step\":\"3\",\"tas\":16,\"tds\":12}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [ { "step": "3", "tas": 16, "tds": 12 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Thaw the required aliquot of lentivirus on ice.", "task_type": "step_identification", "video_end": 28.5, "video_path": "videos640/XM_39.mp4", "video_start": 24.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_32", "eval_id": "monstep_0095", "operation": "Lenti_Infection_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Adjustable volume pipette Used for adding polybrene and virus suspension.\",\"6cm culture dish Contains the target cells for infection.\",\"Incubator Set to 37°C, 5% CO2 for overnight incubation.\"],\"history\":[{\"step\":\"2\",\"tas\":28,\"tds\":10},{\"step\":\"3\",\"tas\":65,\"tds\":23}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"Polybrene Added to culture medium to enhance viral infection.\",\"Lentivirus suspension Added at the desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentivirus Infection of Target Cells", "state": { "equipment": [ "Adjustable volume pipette Used for adding polybrene and virus suspension.", "6cm culture dish Contains the target cells for infection.", "Incubator Set to 37°C, 5% CO2 for overnight incubation." ], "history": [ { "step": "2", "tas": 28, "tds": 10 }, { "step": "3", "tas": 65, "tds": 23 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Seed target cells in a 6cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 2, "step": "2" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection). Gently swirl the plate to ensure even distribution.", "order": 3, "step": "3" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 4, "step": "4" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "Polybrene Added to culture medium to enhance viral infection.", "Lentivirus suspension Added at the desired MOI." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "task_type": "step_identification", "video_end": 77.5, "video_path": "videos640/XM_32.mp4", "video_start": 65.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_01", "eval_id": "monstep_0096", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile\"],\"history\":[{\"step\":\"1\",\"tas\":13,\"tds\":13},{\"step\":\"2\",\"tas\":38,\"tds\":10}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a DNA-PEI complex in Opti-MEM followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery via PEI Transfection", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile" ], "history": [ { "step": "1", "tas": 13, "tds": 13 }, { "step": "2", "tas": 38, "tds": 10 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a DNA-PEI complex in Opti-MEM followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add guide RNA plasmid.", "task_type": "step_identification", "video_end": 49.5, "video_path": "videos640/DJI_01.mp4", "video_start": 40.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_01", "eval_id": "monstep_0097", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "task_type": "step_identification", "video_end": 8.5, "video_path": "videos640/XM_01.mp4", "video_start": 0.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_64", "eval_id": "monstep_0098", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"pipette Used for adding polybrene and virus.\",\"CO2 Incubator Set to 37°C, 5% CO2.\"],\"history\":[{\"step\":\"3\",\"tas\":14,\"tds\":13},{\"step\":\"5\",\"tas\":50,\"tds\":35},{\"step\":\"4\",\"tas\":41,\"tds\":20}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Added to culture medium to enhance infection.\",\"lentivirus suspension Thawed on ice before use.\",\"culture medium Pink liquid in the bottle and dish.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains target cells.", "pipette Used for adding polybrene and virus.", "CO2 Incubator Set to 37°C, 5% CO2." ], "history": [ { "step": "3", "tas": 14, "tds": 13 }, { "step": "5", "tas": 50, "tds": 35 }, { "step": "4", "tas": 41, "tds": 20 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Added to culture medium to enhance infection.", "lentivirus suspension Thawed on ice before use.", "culture medium Pink liquid in the bottle and dish." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "task_type": "step_identification", "video_end": 66.5, "video_path": "videos640/DJI_64.mp4", "video_start": 52.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_09", "eval_id": "monstep_0099", "operation": "Loading DNA samples on E-gel (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\",\"E-gel power base Power supply and base for the E-gel cassette.\",\"Pipette Used to load samples into the gel wells.\",\"Pipette tips Disposable tips for the pipette.\"],\"history\":[{\"step\":\"1\",\"tas\":9,\"tds\":9},{\"step\":\"2\",\"tas\":22,\"tds\":12}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.\",\"reagents\":[\"DNA sample (10 µL) Prepared DNA sample for electrophoresis.\",\"DNA ladder (10 µL) Used as a size standard.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette Pre-cast agarose gel cassette.", "E-gel power base Power supply and base for the E-gel cassette.", "Pipette Used to load samples into the gel wells.", "Pipette tips Disposable tips for the pipette." ], "history": [ { "step": "1", "tas": 9, "tds": 9 }, { "step": "2", "tas": 22, "tds": 12 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves placing an Invitrogen E-gel cassette into its power base, loading DNA samples and a ladder into the wells, and starting the electrophoresis run.", "reagents": [ "DNA sample (10 µL) Prepared DNA sample for electrophoresis.", "DNA ladder (10 µL) Used as a size standard." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 10 µL of DNA ladder into a separate well.", "task_type": "step_identification", "video_end": 37.5, "video_path": "videos640/XM_09.mp4", "video_start": 22.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_02_09_RT", "eval_id": "monstep_0100", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Mix thoroughly by vigorously inverting the sealed tube 4−6 times\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Set 1000 uL pipet to 350 uL\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Mix thoroughly by vigorously inverting the sealed tube 4−6 times", "order": 1, "step": "1" }, { "desc": "Set 1000 uL pipet to 350 uL", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Mix thoroughly by vigorously inverting the sealed tube 4−6 times", "task_type": "step_identification", "video_end": 1.5, "video_path": "videos640/MV_02_09_RT.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_23", "eval_id": "monstep_0101", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":20,\"tds\":15},{\"step\":\"3\",\"tas\":37,\"tds\":16},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":58,\"tds\":10}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 20, "tds": 15 }, { "step": "3", "tas": 37, "tds": 16 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 58, "tds": 10 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "task_type": "step_identification", "video_end": 100.5, "video_path": "videos640/XM_23.mp4", "video_start": 72.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_56", "eval_id": "monstep_0102", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube Sterile tubes used for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"pipette Used for liquid transfer.\",\"CO2 incubator Heracell Vios 160i used for cell incubation.\",\"TC hood Sterile environment for transfection.\"],\"history\":[{\"step\":\"2\",\"tas\":83,\"tds\":83},{\"step\":\"3\",\"tas\":83,\"tds\":83}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube Sterile tubes used for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "pipette Used for liquid transfer.", "CO2 incubator Heracell Vios 160i used for cell incubation.", "TC hood Sterile environment for transfection." ], "history": [ { "step": "2", "tas": 83, "tds": 83 }, { "step": "3", "tas": 83, "tds": 83 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured in a 6-well plate in the video, though protocol specifies a 10 cm dish.", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add the transfection mix dropwise to the HEK293T cells.", "task_type": "step_identification", "video_end": 134.5, "video_path": "videos640/DJI_56.mp4", "video_start": 94.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_08", "eval_id": "monstep_0103", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Preparation", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "task_type": "step_identification", "video_end": 6.5, "video_path": "videos640/XM_08.mp4", "video_start": 0.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_28", "eval_id": "monstep_0104", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "task_type": "step_identification", "video_end": 62.5, "video_path": "videos640/DJI_28.mp4", "video_start": 45.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_25_RT", "eval_id": "monstep_0105", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 8.5, "video_path": "videos640/MV_02_25_RT.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_16", "eval_id": "monstep_0106", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[{\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"objects\":{},\"on\":\"2.2\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.", "pipette Adjustable volume micropipette.", "ice bucket Green ice bucket used for thawing samples.", "microtube Sterile microcentrifuge tube for mixing." ], "history": [ { "step": "2.1", "tas": 15, "tds": 10 } ], "objects": {}, "on": "2.2", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA samples (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer.", "Invitrogen E-gel cassette Pre-cast agarose gel cassette." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Load 10–20 µL of the prepared DNA sample into a well.", "task_type": "step_identification", "video_end": 38.5, "video_path": "videos640/XM_16.mp4", "video_start": 24.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_21", "eval_id": "monstep_0107", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"step\":\"1\",\"tas\":21,\"tds\":21},{\"step\":\"2\",\"tas\":22,\"tds\":1},{\"step\":\"3\",\"tas\":25,\"tds\":3},{\"step\":\"4\",\"tas\":36,\"tds\":10}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation Protocol", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "step": "1", "tas": 21, "tds": 21 }, { "step": "2", "tas": 22, "tds": 1 }, { "step": "3", "tas": 25, "tds": 3 }, { "step": "4", "tas": 36, "tds": 10 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Immediately return the tube to ice for 5 seconds.", "task_type": "step_identification", "video_end": 44.5, "video_path": "videos640/DJI_21.mp4", "video_start": 36.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_02", "eval_id": "monstep_0108", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile eppendorf tube\"],\"history\":[{\"step\":\"1\",\"tas\":24,\"tds\":24}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery via PEI Transfection", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile eppendorf tube" ], "history": [ { "step": "1", "tas": 24, "tds": 24 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a transfection complex using Opti-MEM, Cas9 plasmid, guide RNA plasmid, and PEI, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add guide RNA plasmid.", "task_type": "step_identification", "video_end": 63.5, "video_path": "videos640/DJI_02.mp4", "video_start": 44.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_06_HD", "eval_id": "monstep_0109", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Open cell media bottle\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Attach 5mL pipet tip to pipette man", "order": 1, "step": "1" }, { "desc": "Open cell media bottle", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Attach 5mL pipet tip to pipette man", "task_type": "step_identification", "video_end": 10.5, "video_path": "videos640/MV_01_06_HD.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_30", "eval_id": "monstep_0110", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"step\":\"1\",\"tas\":2,\"tds\":2},{\"step\":\"2\",\"tas\":11,\"tds\":9},{\"step\":\"3\",\"tas\":23,\"tds\":11},{\"step\":\"4\",\"tas\":33,\"tds\":9},{\"step\":\"5\",\"tas\":44,\"tds\":10}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "step": "1", "tas": 2, "tds": 2 }, { "step": "2", "tas": 11, "tds": 9 }, { "step": "3", "tas": 23, "tds": 11 }, { "step": "4", "tas": 33, "tds": 9 }, { "step": "5", "tas": 44, "tds": 10 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "task_type": "step_identification", "video_end": 54.5, "video_path": "videos640/DJI_30.mp4", "video_start": 44.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_05_RT", "eval_id": "monstep_0111", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "task_type": "step_identification", "video_end": 134.0, "video_path": "videos640/MV_03_05_RT.mp4", "video_start": 89.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_19", "eval_id": "monstep_0112", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "task_type": "step_identification", "video_end": 15.5, "video_path": "videos640/XM_19.mp4", "video_start": 4.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_66", "eval_id": "monstep_0113", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette used for adding polybrene and virus.\",\"Pipette tips Sterile tips in boxes.\",\"10 cm dish Cell culture dish containing target cells.\",\"Ice bucket Pink bucket containing ice for thawing virus.\",\"CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2.\"],\"history\":[{\"step\":\"3\",\"tas\":13,\"tds\":12},{\"step\":\"4\",\"tas\":31,\"tds\":13},{\"step\":\"5\",\"tas\":37,\"tds\":6}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.\",\"reagents\":[\"Polybrene Final concentration in culture medium.\",\"Lentivirus suspension Aliquot of lentivirus.\",\"Culture medium Medium in which target cells are seeded.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "Pipette Adjustable volume pipette used for adding polybrene and virus.", "Pipette tips Sterile tips in boxes.", "10 cm dish Cell culture dish containing target cells.", "Ice bucket Pink bucket containing ice for thawing virus.", "CO2 Incubator Heracell VIOS 160i incubator set to 37°C, 5% CO2." ], "history": [ { "step": "3", "tas": 13, "tds": 12 }, { "step": "4", "tas": 31, "tds": 13 }, { "step": "5", "tas": 37, "tds": 6 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This procedure involves infecting pre-seeded target cells with lentivirus in the presence of polybrene to enhance transduction efficiency, followed by overnight incubation.", "reagents": [ "Polybrene Final concentration in culture medium.", "Lentivirus suspension Aliquot of lentivirus.", "Culture medium Medium in which target cells are seeded." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "task_type": "step_identification", "video_end": 53.153, "video_path": "videos640/DJI_66.mp4", "video_start": 37.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_05_RT", "eval_id": "monstep_0114", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 0.250 mL of Buffer P2\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down", "order": 1, "step": "1" }, { "desc": "Add 0.250 mL of Buffer P2", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down", "task_type": "step_identification", "video_end": 170.5, "video_path": "videos640/MV_02_05_RT.mp4", "video_start": 125.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_04_RT", "eval_id": "monstep_0115", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add the agarose powder to the Erlenmeyer flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Weigh out 0.70g of agarose powder using a weigh boat and digital scale", "order": 1, "step": "1" }, { "desc": "Add the agarose powder to the Erlenmeyer flask", "order": 2, "step": "2" }, { "desc": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Weigh out 0.70g of agarose powder using a weigh boat and digital scale", "task_type": "step_identification", "video_end": 112.0, "video_path": "videos640/MV_03_04_RT.mp4", "video_start": 67.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_23", "eval_id": "monstep_0116", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "task_type": "step_identification", "video_end": 5.5, "video_path": "videos640/XM_23.mp4", "video_start": 0.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_22", "eval_id": "monstep_0117", "operation": "Adding cytokine into cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 incubator Heracell Vios 160i\",\"TC hood Tissue culture hood for sterile work.\",\"vacuum aspirator Used to remove old medium.\",\"serological pipette Used to add fresh medium.\",\"micropipette Used to add cytokine.\",\"inverted microscope EVOS M5000 for cell assessment.\",\"6-well plate Cell culture vessel.\"],\"history\":[{\"step\":\"1\",\"tas\":10,\"tds\":10}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"cell culture medium Fresh medium added to the culture plate.\",\"cytokine Added to the medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 incubator Heracell Vios 160i", "TC hood Tissue culture hood for sterile work.", "vacuum aspirator Used to remove old medium.", "serological pipette Used to add fresh medium.", "micropipette Used to add cytokine.", "inverted microscope EVOS M5000 for cell assessment.", "6-well plate Cell culture vessel." ], "history": [ { "step": "1", "tas": 10, "tds": 10 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for refreshing cell culture medium and introducing cytokines to cells, followed by microscopic evaluation and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "cell culture medium Fresh medium added to the culture plate.", "cytokine Added to the medium." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "task_type": "step_identification", "video_end": 52.5, "video_path": "videos640/DJI_22.mp4", "video_start": 21.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_19", "eval_id": "monstep_0118", "operation": "Transformation (correct) replicate 2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"step\":\"1\",\"tas\":28,\"tds\":28}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "heat block / water bath used for heat shock at 42°C" ], "history": [ { "step": "1", "tas": 28, "tds": 28 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Incubate the DNA-cell mixture on ice for 5 seconds.", "task_type": "step_identification", "video_end": 38.5, "video_path": "videos640/DJI_19.mp4", "video_start": 30.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_10_RF", "eval_id": "monstep_0119", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Grab new pipetterman 5mL tip", "order": 1, "step": "1" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Grab new pipetterman 5mL tip", "task_type": "step_identification", "video_end": 12.5, "video_path": "videos640/MV_01_10_RF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_21", "eval_id": "monstep_0120", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Single-channel pipette used for reagent transfer.\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes.\",\"Tube racks Yellow and blue racks used to hold tubes.\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Mini centrifuge Used for a quick spin of the PCR tubes.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"step\":\"2\",\"tas\":53,\"tds\":53},{\"step\":\"7\",\"tas\":64,\"tds\":10}],\"objects\":{},\"on\":\"7\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice during setup.\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.\",\"Ice Used to keep reagents cold during setup.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Single-channel pipette used for reagent transfer.", "Pipette tips", "PCR tubes 0.2 mL sterile tubes.", "Tube racks Yellow and blue racks used to hold tubes.", "Ice bucket Green ice bucket used to keep reagents cold.", "Mini centrifuge Used for a quick spin of the PCR tubes.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "step": "2", "tas": 53, "tds": 53 }, { "step": "7", "tas": 64, "tds": 10 } ], "objects": {}, "on": "7", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice during setup.", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.", "Ice Used to keep reagents cold during setup." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "8", "target_step_text": "Place the tube into the thermocycler.", "task_type": "step_identification", "video_end": 71.5, "video_path": "videos640/XM_21.mp4", "video_start": 67.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_02_33_RT", "eval_id": "monstep_0121", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":81,\"tds\":6},{\"step\":\"2\",\"tas\":103,\"tds\":22}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 81, "tds": 6 }, { "step": "2", "tas": 103, "tds": 22 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Discard flowthrough to appropriate waste container", "task_type": "step_identification", "video_end": 115.033, "video_path": "videos640/MV_02_33_RT.mp4", "video_start": 104.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_35_BL", "eval_id": "monstep_0122", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Retrieve spin column from centrifuge to rack", "task_type": "step_identification", "video_end": 36.5, "video_path": "videos640/MV_02_35_BL.mp4", "video_start": 29.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_03_BL", "eval_id": "monstep_0123", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":401,\"tds\":109}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 401, "tds": 109 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Load bacterial culture tubes into centrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at 7000 x g for 3 min", "order": 2, "step": "2" }, { "desc": "Remove supernatant and keep the bacterial pellet", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Start centrifuge at 7000 x g for 3 min", "task_type": "step_identification", "video_end": 452.0, "video_path": "videos640/MV_02_03_BL.mp4", "video_start": 407.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_07_HG", "eval_id": "monstep_0124", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":53,\"tds\":53},{\"step\":\"2\",\"tas\":173,\"tds\":30}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 53, "tds": 53 }, { "step": "2", "tas": 173, "tds": 30 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "order": 2, "step": "2" }, { "desc": "Transfer 3 µL of Ladder to the microcentrifuge tube", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Transfer 3 µL of Ladder to the microcentrifuge tube", "task_type": "step_identification", "video_end": 217.039, "video_path": "videos640/MV_03_07_HG.mp4", "video_start": 187.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_08", "eval_id": "monstep_0125", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":5},{\"step\":\"3\",\"tas\":22,\"tds\":15},{\"step\":\"4\",\"tas\":44,\"tds\":7},{\"step\":\"5\",\"tas\":52,\"tds\":3}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "step": "1", "tas": 6, "tds": 5 }, { "step": "3", "tas": 22, "tds": 15 }, { "step": "4", "tas": 44, "tds": 7 }, { "step": "5", "tas": 52, "tds": 3 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Aspirate old medium completely using vacuum aspirator", "task_type": "step_identification", "video_end": 64.5, "video_path": "videos640/DJI_08.mp4", "video_start": 58.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_01_HG", "eval_id": "monstep_0126", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Thaw DNA", "order": 2, "step": "2" }, { "desc": "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "order": 3, "step": "3" }, { "desc": "Add DNA substrate (Plasmid or PCR product) to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "task_type": "step_identification", "video_end": 49.0, "video_path": "videos640/MV_03_01_HG.mp4", "video_start": 4.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_20", "eval_id": "monstep_0127", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"step\":\"2\",\"tas\":18,\"tds\":13},{\"step\":\"3\",\"tas\":35,\"tds\":10},{\"step\":\"4\",\"tas\":48,\"tds\":12}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "step": "2", "tas": 18, "tds": 13 }, { "step": "3", "tas": 35, "tds": 10 }, { "step": "4", "tas": 48, "tds": 12 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "task_type": "step_identification", "video_end": 66.5, "video_path": "videos640/XM_20.mp4", "video_start": 48.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_23", "eval_id": "monstep_0128", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC Hood Tissue culture hood for sterile work\",\"Aspiration system Vacuum line with glass pipette for medium removal\",\"Pipette controller Used with serological pipettes\",\"Micropipette Used for adding cytokines\",\"Inverted microscope EVOS system for cell imaging\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":15,\"tds\":10},{\"step\":\"3\",\"tas\":38,\"tds\":15}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.\",\"reagents\":[\"70% ethanol Used for hand disinfection\",\"Fresh medium Pre-warmed medium for cell culture\",\"Cytokine(s)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC Hood Tissue culture hood for sterile work", "Aspiration system Vacuum line with glass pipette for medium removal", "Pipette controller Used with serological pipettes", "Micropipette Used for adding cytokines", "Inverted microscope EVOS system for cell imaging" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 15, "tds": 10 }, { "step": "3", "tas": 38, "tds": 15 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines, followed by microscopic inspection and returning the cells to the incubator.", "reagents": [ "70% ethanol Used for hand disinfection", "Fresh medium Pre-warmed medium for cell culture", "Cytokine(s)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "task_type": "step_identification", "video_end": 72.5, "video_path": "videos640/DJI_23.mp4", "video_start": 42.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_60", "eval_id": "monstep_0129", "operation": "Virus_collecting(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette Used for collecting supernatant and dispensing\",\"TC hood Laminar flow hood for sterile work\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette Used for collecting supernatant and dispensing", "TC hood Laminar flow hood for sterile work" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "task_type": "step_identification", "video_end": 30.5, "video_path": "videos640/DJI_60.mp4", "video_start": 12.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_29", "eval_id": "monstep_0130", "operation": "Freeze_Cells_Right_2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 mL conical tube\",\"centrifuge Model MD-550 visible.\",\"pipette 1000 uL micropipette used for transfer.\"],\"history\":[{\"step\":\"1\",\"tas\":82,\"tds\":22}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Transfer the cell suspension into a 15 mL conical tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Centrifuge at 300 × g for 5 minutes at room temperature.\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"This procedure involves transferring a cell suspension from a culture vessel into a conical tube followed by centrifugation to pellet the cells.\",\"reagents\":[\"cell suspension Cells resuspended in medium within a petri dish.\",\"DMEM Used for resuspending cells in the dish.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Suspension Transfer and Centrifugation", "state": { "equipment": [ "15 mL conical tube", "centrifuge Model MD-550 visible.", "pipette 1000 uL micropipette used for transfer." ], "history": [ { "step": "1", "tas": 82, "tds": 22 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Transfer the cell suspension into a 15 mL conical tube.", "order": 1, "step": "1" }, { "desc": "Centrifuge at 300 × g for 5 minutes at room temperature.", "order": 2, "step": "2" } ], "protocol_summary": "This procedure involves transferring a cell suspension from a culture vessel into a conical tube followed by centrifugation to pellet the cells.", "reagents": [ "cell suspension Cells resuspended in medium within a petri dish.", "DMEM Used for resuspending cells in the dish." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Centrifuge at 300 × g for 5 minutes at room temperature.", "task_type": "step_identification", "video_end": 109.5, "video_path": "videos640/XM_29.mp4", "video_start": 97.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_11_RF", "eval_id": "monstep_0131", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":0,\"tds\":0}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Attach pipet to pipetterman without touching the glass\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Move pipet tip and fluid waste disposals to easily reachable location\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 0, "tds": 0 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Attach pipet to pipetterman without touching the glass", "order": 1, "step": "1" }, { "desc": "Attach 5mL pipet tip to pipette man", "order": 2, "step": "2" }, { "desc": "Move pipet tip and fluid waste disposals to easily reachable location", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Attach 5mL pipet tip to pipette man", "task_type": "step_identification", "video_end": 6.5, "video_path": "videos640/MV_01_11_RF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_04_TD", "eval_id": "monstep_0132", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":179,\"tds\":179},{\"step\":\"2\",\"tas\":208,\"tds\":23}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Weigh out 0.70g of agarose powder using a weigh boat and digital scale\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add the agarose powder to the Erlenmeyer flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 179, "tds": 179 }, { "step": "2", "tas": 208, "tds": 23 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Weigh out 0.70g of agarose powder using a weigh boat and digital scale", "order": 1, "step": "1" }, { "desc": "Add the agarose powder to the Erlenmeyer flask", "order": 2, "step": "2" }, { "desc": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Pour 100 mL of 1X TAE buffer into the same Erlenmeyer flask", "task_type": "step_identification", "video_end": 259.5, "video_path": "videos640/MV_03_04_TD.mp4", "video_start": 214.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_44", "eval_id": "monstep_0133", "operation": "PCR Reaction Setup for sanger and TIDE analysis", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.\",\"Single-channel pipette Used for adding individual reagents.\",\"Multichannel pipette Used for efficient reagent transfer across multiple wells.\",\"Mini-centrifuge Used to spin down PCR strips.\",\"PCR tube strips\"],\"history\":[{\"step\":\"1\",\"tas\":17,\"tds\":17},{\"step\":\"3\",\"tas\":55,\"tds\":24},{\"step\":\"4\",\"tas\":120,\"tds\":64},{\"step\":\"5\",\"tas\":174,\"tds\":41}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 µL QuickExtract lysate as the DNA template.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently mix, briefly spin down to collect contents, and seal the tubes/plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place reactions into the PCR machine and select the saved Phanta PCR amplification program.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Start the run and proceed to downstream analysis upon completion.\",\"order\":9,\"step\":\"9\"}],\"protocol_summary\":\"This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.\",\"reagents\":[\"PCR mix buffer (10 µL) Added to each reaction well.\",\"Forward primer (1 µL)\",\"Reverse primer (1 µL)\",\"QuickExtract lysate (2 µL) Used as the DNA template.\",\"Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup for Sanger and TIDE Analysis", "state": { "equipment": [ "Bio-Rad T100 Thermal Cycler Used for sample retrieval and PCR amplification.", "Single-channel pipette Used for adding individual reagents.", "Multichannel pipette Used for efficient reagent transfer across multiple wells.", "Mini-centrifuge Used to spin down PCR strips.", "PCR tube strips" ], "history": [ { "step": "1", "tas": 17, "tds": 17 }, { "step": "3", "tas": 55, "tds": 24 }, { "step": "4", "tas": 120, "tds": 64 }, { "step": "5", "tas": 174, "tds": 41 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Retrieve lysed iPSC-fibroblast samples from the thermal cycler and place on ice.", "order": 1, "step": "1" }, { "desc": "Thaw PCR mix buffer and primers on ice, then briefly vortex and spin down.", "order": 2, "step": "2" }, { "desc": "For each reaction, add 10 µL PCR mix buffer to the PCR tube/well.", "order": 3, "step": "3" }, { "desc": "Add 1 µL forward primer (10 nM) and 1 µL reverse primer (10 nM) to each reaction.", "order": 4, "step": "4" }, { "desc": "Add 2 µL QuickExtract lysate as the DNA template.", "order": 5, "step": "5" }, { "desc": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "order": 6, "step": "6" }, { "desc": "Gently mix, briefly spin down to collect contents, and seal the tubes/plate.", "order": 7, "step": "7" }, { "desc": "Place reactions into the PCR machine and select the saved Phanta PCR amplification program.", "order": 8, "step": "8" }, { "desc": "Start the run and proceed to downstream analysis upon completion.", "order": 9, "step": "9" } ], "protocol_summary": "This procedure describes the setup of a PCR reaction using iPSC-fibroblast lysates, including reagent addition, sample preparation, and initiation of the thermal cycling program.", "reagents": [ "PCR mix buffer (10 µL) Added to each reaction well.", "Forward primer (1 µL)", "Reverse primer (1 µL)", "QuickExtract lysate (2 µL) Used as the DNA template.", "Nuclease-free water (ddH₂O) (8 µL) Brings total volume to 22 µL." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Add 8 µL nuclease-free water (ddH₂O) to bring the total volume to 22 µL.", "task_type": "step_identification", "video_end": 218.5, "video_path": "videos640/XM_44.mp4", "video_start": 192.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_20", "eval_id": "monstep_0134", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold during setup\",\"Microcentrifuge Used for quick spin\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Final volume 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette", "Pipette tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold during setup", "Microcentrifuge Used for quick spin", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction mixture, including reagent addition, mixing, and the initiation of the thermal cycling program.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Final volume 25 μL" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "task_type": "step_identification", "video_end": 18.5, "video_path": "videos640/XM_20.mp4", "video_start": 4.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_23", "eval_id": "monstep_0135", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "task_type": "step_identification", "video_end": 20.5, "video_path": "videos640/XM_23.mp4", "video_start": 4.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_02_30_OUT", "eval_id": "monstep_0136", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.5 mL Buffer PB (Wash 1) to spin columns\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Discard flowthrough to appropriate waste container", "order": 1, "step": "1" }, { "desc": "Apply 0.5 mL Buffer PB (Wash 1) to spin columns", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Discard flowthrough to appropriate waste container", "task_type": "step_identification", "video_end": 19.5, "video_path": "videos640/MV_02_30_OUT.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_19", "eval_id": "monstep_0137", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\",\"Ice bucket Used to keep reagents cold during setup.\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":15,\"tds\":10},{\"step\":\"3\",\"tas\":25,\"tds\":9}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler", "Ice bucket Used to keep reagents cold during setup." ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 15, "tds": 10 }, { "step": "3", "tas": 25, "tds": 9 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add 1 μL of Reverse Primer (10 μM stock).", "task_type": "step_identification", "video_end": 35.5, "video_path": "videos640/XM_19.mp4", "video_start": 25.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_09_LT", "eval_id": "monstep_0138", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Load mixed samples into the gel", "order": 1, "step": "1" }, { "desc": "Place the lid on the electrophoresis tank", "order": 2, "step": "2" }, { "desc": "Turn on the power supply and set to 110V", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Load mixed samples into the gel", "task_type": "step_identification", "video_end": 75.0, "video_path": "videos640/MV_03_09_LT.mp4", "video_start": 30.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_47", "eval_id": "monstep_0139", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\",\"ice bucket Used to keep lentivirus cold during thawing.\"],\"history\":[{\"step\":\"2\",\"tas\":10,\"tds\":10},{\"step\":\"3\",\"tas\":20,\"tds\":10},{\"step\":\"4\",\"tas\":40,\"tds\":20}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium to enhance infection.\",\"culture medium\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂).", "ice bucket Used to keep lentivirus cold during thawing." ], "history": [ { "step": "2", "tas": 10, "tds": 10 }, { "step": "3", "tas": 20, "tds": 10 }, { "step": "4", "tas": 40, "tds": 20 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium to enhance infection.", "culture medium" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "task_type": "step_identification", "video_end": 66.233, "video_path": "videos640/DJI_47.mp4", "video_start": 51.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_34", "eval_id": "monstep_0140", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.\",\"1.5 mL tube Sterile microcentrifuge tube\",\"pipette Adjustable volume pipettes\",\"vortex mixer Used to mix plasmid and reagent solutions\",\"CO2 incubator For cell culture incubation\",\"6-well plate Observed in video as the cell culture vessel\"],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"HEK293T cells Cultured to ~70% confluency\",\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "10 cm dish Protocol specifies 10 cm dish; video shows 6-well plate.", "1.5 mL tube Sterile microcentrifuge tube", "pipette Adjustable volume pipettes", "vortex mixer Used to mix plasmid and reagent solutions", "CO2 incubator For cell culture incubation", "6-well plate Observed in video as the cell culture vessel" ], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "HEK293T cells Cultured to ~70% confluency", "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "task_type": "step_identification", "video_end": 79.0, "video_path": "videos640/XM_34.mp4", "video_start": 34.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_02_01_RT", "eval_id": "monstep_0141", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":13,\"tds\":13},{\"step\":\"2\",\"tas\":27,\"tds\":15}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 13, "tds": 13 }, { "step": "2", "tas": 27, "tds": 15 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Load bacterial culture tubes into centrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at 7000 x g for 3 min", "order": 2, "step": "2" }, { "desc": "Remove supernatant and keep the bacterial pellet", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Remove supernatant and keep the bacterial pellet", "task_type": "step_identification", "video_end": 414.0, "video_path": "videos640/MV_02_01_RT.mp4", "video_start": 369.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_15_LF", "eval_id": "monstep_0142", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "task_type": "step_identification", "video_end": 12.5, "video_path": "videos640/MV_01_15_LF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_26", "eval_id": "monstep_0143", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"step\":\"1\",\"tas\":4,\"tds\":4},{\"step\":\"2\",\"tas\":18,\"tds\":13},{\"step\":\"3\",\"tas\":34,\"tds\":15}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5)\",\"Forward Primer (1.0) 10 μM stock\",\"Reverse Primer (1.0) 10 μM stock\",\"template DNA (2.0) concentration approx. 20 ng/μL\",\"nuclease-free water (8.5) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "step": "1", "tas": 4, "tds": 4 }, { "step": "2", "tas": 18, "tds": 13 }, { "step": "3", "tas": 34, "tds": 15 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, DNA template, and water, followed by mixing, centrifugation, and thermal cycling.", "reagents": [ "2x Master Mix (12.5)", "Forward Primer (1.0) 10 μM stock", "Reverse Primer (1.0) 10 μM stock", "template DNA (2.0) concentration approx. 20 ng/μL", "nuclease-free water (8.5) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add 1 μL of Reverse Primer (10 μM stock).", "task_type": "step_identification", "video_end": 45.5, "video_path": "videos640/DJI_26.mp4", "video_start": 34.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_21", "eval_id": "monstep_0144", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"step\":\"1\",\"tas\":21,\"tds\":21},{\"step\":\"2\",\"tas\":22,\"tds\":1},{\"step\":\"3\",\"tas\":25,\"tds\":3}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation Protocol", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "step": "1", "tas": 21, "tds": 21 }, { "step": "2", "tas": 22, "tds": 1 }, { "step": "3", "tas": 25, "tds": 3 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "task_type": "step_identification", "video_end": 36.5, "video_path": "videos640/DJI_21.mp4", "video_start": 25.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_17", "eval_id": "monstep_0145", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"step\":\"1\",\"tas\":33,\"tds\":33},{\"step\":\"2\",\"tas\":45,\"tds\":7},{\"step\":\"3\",\"tas\":46,\"tds\":1},{\"step\":\"4\",\"tas\":55,\"tds\":9},{\"step\":\"5\",\"tas\":60,\"tds\":4},{\"step\":\"6\",\"tas\":103,\"tds\":33}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "E. coli Transformation", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "step": "1", "tas": 33, "tds": 33 }, { "step": "2", "tas": 45, "tds": 7 }, { "step": "3", "tas": 46, "tds": 1 }, { "step": "4", "tas": 55, "tds": 9 }, { "step": "5", "tas": 60, "tds": 4 }, { "step": "6", "tas": 103, "tds": 33 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A protocol for transforming competent E. coli cells with plasmid DNA, including heat shock and plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Invert the plates.", "task_type": "step_identification", "video_end": 139.072, "video_path": "videos640/DJI_17.mp4", "video_start": 103.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_07", "eval_id": "monstep_0146", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile environment for cell culture work.\",\"CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.\",\"Vacuum aspirator Used to remove spent medium.\",\"Pipette controller Used with serological pipettes.\",\"10cm culture dish Vessel for cell growth.\",\"50ml conical tube Used for cell suspension transfer.\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"3\",\"tas\":30,\"tds\":24},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":51,\"tds\":3}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Place dishes back\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":20,\"step\":\"20\"}],\"protocol_summary\":\"A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.\",\"Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Procedure", "state": { "equipment": [ "Biosafety cabinet Sterile environment for cell culture work.", "CO2 Incubator Maintains 37°C and 5% CO2 for cell growth.", "Vacuum aspirator Used to remove spent medium.", "Pipette controller Used with serological pipettes.", "10cm culture dish Vessel for cell growth.", "50ml conical tube Used for cell suspension transfer." ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "3", "tas": 30, "tds": 24 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 51, "tds": 3 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 8, "step": "8" }, { "desc": "Ensure even distribution by tilting dish", "order": 9, "step": "9" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 10, "step": "10" }, { "desc": "Gently tap sides of dish to help detachment", "order": 11, "step": "11" }, { "desc": "Add 5ml complete medium to dish", "order": 12, "step": "12" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 13, "step": "13" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 14, "step": "14" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 15, "step": "15" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 16, "step": "16" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 17, "step": "17" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 18, "step": "18" }, { "desc": "Place dishes back", "order": 19, "step": "19" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 20, "step": "20" } ], "protocol_summary": "A standard protocol for passaging adherent cells, involving medium removal, enzymatic detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "0.25% Trypsin-EDTA (1ml) Enzymatic solution used to detach adherent cells from the dish surface.", "Complete medium (10ml) Used to neutralize trypsin and provide nutrients for cell growth." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Aspirate old medium completely using vacuum aspirator", "task_type": "step_identification", "video_end": 63.5, "video_path": "videos640/DJI_07.mp4", "video_start": 51.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_36_HD", "eval_id": "monstep_0147", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Discard flowthrough to appropriate waste container", "task_type": "step_identification", "video_end": 44.5, "video_path": "videos640/MV_02_36_HD.mp4", "video_start": 21.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_25", "eval_id": "monstep_0148", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3},{\"step\":\"2\",\"tas\":17,\"tds\":13},{\"step\":\"3\",\"tas\":29,\"tds\":0},{\"step\":\"4\",\"tas\":44,\"tds\":15},{\"step\":\"5\",\"tas\":62,\"tds\":17},{\"step\":\"6\",\"tas\":89,\"tds\":15}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC hood Tissue culture laminar flow hood.", "serological pipette Used for adding fresh medium.", "micropipette Used for adding cytokines.", "cell culture plate 6-well plate used for cell culture.", "inverted microscope EVOS imaging system." ], "history": [ { "step": "1", "tas": 3, "tds": 3 }, { "step": "2", "tas": 17, "tds": 13 }, { "step": "3", "tas": 29, "tds": 0 }, { "step": "4", "tas": 44, "tds": 15 }, { "step": "5", "tas": 62, "tds": 17 }, { "step": "6", "tas": 89, "tds": 15 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "fresh medium Pink liquid added to the culture plate.", "cytokine Added to the medium in the culture plate." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Place the plate back into the incubator at the correct conditions.", "task_type": "step_identification", "video_end": 103.5, "video_path": "videos640/DJI_25.mp4", "video_start": 89.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_35", "eval_id": "monstep_0149", "operation": "Virus_packging_tranfection_of_293T_cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette P200 and P1000 pipettes used.\",\"1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.\",\"6-well plate Used instead of the 10 cm dish specified in the protocol.\",\"incubator Used for cell culture and incubation after transfection.\",\"TC hood Biosafety cabinet for sterile work.\"],\"history\":[{\"step\":\"2\",\"tas\":65,\"tds\":62},{\"step\":\"3\",\"tas\":84,\"tds\":19}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "pipette P200 and P1000 pipettes used.", "1.5 mL tube Sterile microcentrifuge tube for mixing plasmids.", "6-well plate Used instead of the 10 cm dish specified in the protocol.", "incubator Used for cell culture and incubation after transfection.", "TC hood Biosafety cabinet for sterile work." ], "history": [ { "step": "2", "tas": 65, "tds": 62 }, { "step": "3", "tas": 84, "tds": 19 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a mixture of lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells Cultured in a 10 cm dish according to protocol, but a 6-well plate is used in the video." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add the transfection mix dropwise to the HEK293T cells.", "task_type": "step_identification", "video_end": 126.5, "video_path": "videos640/XM_35.mp4", "video_start": 104.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_05_HD", "eval_id": "monstep_0150", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Place cell cytometer and calculator on top of cart near hood", "task_type": "step_identification", "video_end": 12.5, "video_path": "videos640/MV_01_05_HD.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_35_BL", "eval_id": "monstep_0151", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"2\",\"tas\":36,\"tds\":6},{\"step\":\"3\",\"tas\":58,\"tds\":22}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "2", "tas": 36, "tds": 6 }, { "step": "3", "tas": 58, "tds": 22 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "task_type": "step_identification", "video_end": 115.033, "video_path": "videos640/MV_02_35_BL.mp4", "video_start": 108.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_13", "eval_id": "monstep_0152", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3},{\"step\":\"2.1\",\"tas\":8,\"tds\":5},{\"step\":\"4\",\"tas\":25,\"tds\":17},{\"step\":\"3\",\"tas\":28,\"tds\":3}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar power base.", "pipette", "pipette tips", "microtube Sterile microtube for mixing." ], "history": [ { "step": "1", "tas": 3, "tds": 3 }, { "step": "2.1", "tas": 8, "tds": 5 }, { "step": "4", "tas": 25, "tds": 17 }, { "step": "3", "tas": 28, "tds": 3 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA samples (10 µL) Thaw on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Press the “Run” button on the E-gel power base to start electrophoresis.", "task_type": "step_identification", "video_end": 31.5, "video_path": "videos640/XM_13.mp4", "video_start": 28.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_02_08_HD", "eval_id": "monstep_0153", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":237,\"tds\":237}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 0.250 mL of Buffer P2\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 237, "tds": 237 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down", "order": 1, "step": "1" }, { "desc": "Add 0.250 mL of Buffer P2", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add 0.250 mL of Buffer P2", "task_type": "step_identification", "video_end": 294.0, "video_path": "videos640/MV_02_08_HD.mp4", "video_start": 249.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_08", "eval_id": "monstep_0154", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":5},{\"step\":\"3\",\"tas\":22,\"tds\":15},{\"step\":\"4\",\"tas\":44,\"tds\":7},{\"step\":\"5\",\"tas\":52,\"tds\":3},{\"step\":\"6\",\"tas\":64,\"tds\":5},{\"step\":\"8\",\"tas\":85,\"tds\":8},{\"step\":\"9\",\"tas\":89,\"tds\":2},{\"step\":\"10\",\"tas\":94,\"tds\":4},{\"step\":\"11\",\"tas\":112,\"tds\":6}],\"objects\":{},\"on\":\"11\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "step": "1", "tas": 6, "tds": 5 }, { "step": "3", "tas": 22, "tds": 15 }, { "step": "4", "tas": 44, "tds": 7 }, { "step": "5", "tas": 52, "tds": 3 }, { "step": "6", "tas": 64, "tds": 5 }, { "step": "8", "tas": 85, "tds": 8 }, { "step": "9", "tas": 89, "tds": 2 }, { "step": "10", "tas": 94, "tds": 4 }, { "step": "11", "tas": 112, "tds": 6 } ], "objects": {}, "on": "11", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "12", "target_step_text": "Ensure even distribution by tilting dish", "task_type": "step_identification", "video_end": 121.5, "video_path": "videos640/DJI_08.mp4", "video_start": 118.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_20", "eval_id": "monstep_0155", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"step\":\"1\",\"tas\":18,\"tds\":18},{\"step\":\"2\",\"tas\":19,\"tds\":1},{\"step\":\"3\",\"tas\":25,\"tds\":6},{\"step\":\"4\",\"tas\":36,\"tds\":10},{\"step\":\"5\",\"tas\":37,\"tds\":1},{\"step\":\"6\",\"tas\":59,\"tds\":22}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation Protocol", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "step": "1", "tas": 18, "tds": 18 }, { "step": "2", "tas": 19, "tds": 1 }, { "step": "3", "tas": 25, "tds": 6 }, { "step": "4", "tas": 36, "tds": 10 }, { "step": "5", "tas": 37, "tds": 1 }, { "step": "6", "tas": 59, "tds": 22 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Invert the plates.", "task_type": "step_identification", "video_end": 64.164, "video_path": "videos640/DJI_20.mp4", "video_start": 59.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_08_TD", "eval_id": "monstep_0156", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "task_type": "step_identification", "video_end": 27.5, "video_path": "videos640/MV_03_08_TD.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_49_RT", "eval_id": "monstep_0157", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place apprpriate spin column in collection tube", "order": 1, "step": "1" }, { "desc": "Apply 0.050 mL Buffer EB (Elution)", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 4, "step": "4" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Place apprpriate spin column in collection tube", "task_type": "step_identification", "video_end": 11.5, "video_path": "videos640/MV_02_49_RT.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_54", "eval_id": "monstep_0158", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"step\":\"2\",\"tas\":30,\"tds\":25},{\"step\":\"3\",\"tas\":43,\"tds\":12},{\"step\":\"4\",\"tas\":79,\"tds\":13},{\"step\":\"5\",\"tas\":150,\"tds\":21},{\"step\":\"6\",\"tas\":157,\"tds\":6}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "step": "2", "tas": 30, "tds": 25 }, { "step": "3", "tas": 43, "tds": 12 }, { "step": "4", "tas": 79, "tds": 13 }, { "step": "5", "tas": 150, "tds": 21 }, { "step": "6", "tas": 157, "tds": 6 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "task_type": "step_identification", "video_end": 171.104, "video_path": "videos640/DJI_54.mp4", "video_start": 160.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_09_LT", "eval_id": "monstep_0159", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":105,\"tds\":105}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 105, "tds": 105 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Load mixed samples into the gel", "order": 1, "step": "1" }, { "desc": "Place the lid on the electrophoresis tank", "order": 2, "step": "2" }, { "desc": "Turn on the power supply and set to 110V", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Place the lid on the electrophoresis tank", "task_type": "step_identification", "video_end": 113.5, "video_path": "videos640/MV_03_09_LT.mp4", "video_start": 108.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_26", "eval_id": "monstep_0160", "operation": "RNA_Extraction_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette Used for aspirating, washing, and transferring\",\"pipette tips\",\"1.5 mL microcentrifuge tube RNase-free\",\"cell culture dish Contains the cells being processed\",\"marker pen Used for labeling tubes\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Aspirate and discard the culture medium from the cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash the cells once with 1 mL sterile PBS to remove residual medium.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 500 µL of RNA lysis buffer directly onto the cells in the dish.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette up and down 5–10 times to lyse and homogenize the cells completely.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.\",\"reagents\":[\"PBS (1 mL) Used for washing cells\",\"RNA lysis buffer (500 µL) Added directly to cells for lysis\",\"70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "RNA Extraction - Cell Lysis and Homogenization", "state": { "equipment": [ "pipette Used for aspirating, washing, and transferring", "pipette tips", "1.5 mL microcentrifuge tube RNase-free", "cell culture dish Contains the cells being processed", "marker pen Used for labeling tubes" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Aspirate and discard the culture medium from the cells.", "order": 1, "step": "1" }, { "desc": "Wash the cells once with 1 mL sterile PBS to remove residual medium.", "order": 2, "step": "2" }, { "desc": "Add 500 µL of RNA lysis buffer directly onto the cells in the dish.", "order": 3, "step": "3" }, { "desc": "Pipette up and down 5–10 times to lyse and homogenize the cells completely.", "order": 4, "step": "4" }, { "desc": "Transfer the lysate into a sterile RNase-free 1.5 mL microcentrifuge tube.", "order": 5, "step": "5" }, { "desc": "Add an equal volume of 70% ethanol to the lysate and mix gently by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the initial steps of RNA extraction from adherent cells, including medium removal, washing, lysis with buffer, and preparation for binding with ethanol.", "reagents": [ "PBS (1 mL) Used for washing cells", "RNA lysis buffer (500 µL) Added directly to cells for lysis", "70% ethanol (equal volume to lysate) Mixed with lysate to facilitate RNA binding" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Aspirate and discard the culture medium from the cells.", "task_type": "step_identification", "video_end": 26.5, "video_path": "videos640/XM_26.mp4", "video_start": 14.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_21", "eval_id": "monstep_0161", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"micropipette\",\"pipette tips\",\"ice bucket Green container filled with ice.\",\"thermal cycler Used as a heat shock bath at 42°C.\",\"microcentrifuge tube rack Yellow and orange racks.\"],\"history\":[{\"step\":\"1\",\"tas\":21,\"tds\":21},{\"step\":\"2\",\"tas\":22,\"tds\":1},{\"step\":\"3\",\"tas\":25,\"tds\":3},{\"step\":\"4\",\"tas\":36,\"tds\":10},{\"step\":\"5\",\"tas\":44,\"tds\":7},{\"step\":\"6\",\"tas\":59,\"tds\":14}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate (1 plate) Contains appropriate selective antibiotic.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation Protocol", "state": { "equipment": [ "micropipette", "pipette tips", "ice bucket Green container filled with ice.", "thermal cycler Used as a heat shock bath at 42°C.", "microcentrifuge tube rack Yellow and orange racks." ], "history": [ { "step": "1", "tas": 21, "tds": 21 }, { "step": "2", "tas": 22, "tds": 1 }, { "step": "3", "tas": 25, "tds": 3 }, { "step": "4", "tas": 36, "tds": 10 }, { "step": "5", "tas": 44, "tds": 7 }, { "step": "6", "tas": 59, "tds": 14 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate (1 plate) Contains appropriate selective antibiotic." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Invert the plates.", "task_type": "step_identification", "video_end": 63.5, "video_path": "videos640/DJI_21.mp4", "video_start": 59.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_01", "eval_id": "monstep_0162", "operation": "PCR reaction setup (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube\",\"Pipette\",\"Microcentrifuge\",\"Thermocycler\"],\"history\":[{\"step\":\"1\",\"tas\":8,\"tds\":7},{\"step\":\"2\",\"tas\":18,\"tds\":9},{\"step\":\"3\",\"tas\":32,\"tds\":13}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube", "Pipette", "Microcentrifuge", "Thermocycler" ], "history": [ { "step": "1", "tas": 8, "tds": 7 }, { "step": "2", "tas": 18, "tds": 9 }, { "step": "3", "tas": 32, "tds": 13 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a PCR reaction by combining Master Mix, primers, and template DNA, followed by centrifugation and thermocycling.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add template DNA (in the tube labeled T).", "task_type": "step_identification", "video_end": 45.5, "video_path": "videos640/XM_01.mp4", "video_start": 32.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_05_CH", "eval_id": "monstep_0163", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 12, "tds": 12 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "task_type": "step_identification", "video_end": 75.0, "video_path": "videos640/MV_01_05_CH.mp4", "video_start": 57.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_19", "eval_id": "monstep_0164", "operation": "Transformation (correct) replicate 2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"heat block / water bath used for heat shock at 42°C\"],\"history\":[{\"step\":\"1\",\"tas\":28,\"tds\":28},{\"step\":\"2\",\"tas\":31,\"tds\":3}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "heat block / water bath used for heat shock at 42°C" ], "history": [ { "step": "1", "tas": 28, "tds": 28 }, { "step": "2", "tas": 31, "tds": 3 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A standard procedure for introducing plasmid DNA into competent E. coli cells using heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "task_type": "step_identification", "video_end": 45.5, "video_path": "videos640/DJI_19.mp4", "video_start": 37.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_06", "eval_id": "monstep_0165", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes\",\"pipette Adjustable volume pipette\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack used to hold PCR tubes\"],\"history\":[{\"step\":\"1\",\"tas\":8,\"tds\":3},{\"step\":\"2\",\"tas\":30,\"tds\":15}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.\",\"reagents\":[\"sterile water (100 µL) In the tube labeled H2O\",\"original sample (100 µL) In the tube labeled S\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Preparation", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes", "pipette Adjustable volume pipette", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack used to hold PCR tubes" ], "history": [ { "step": "1", "tas": 8, "tds": 3 }, { "step": "2", "tas": 30, "tds": 15 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.", "reagents": [ "sterile water (100 µL) In the tube labeled H2O", "original sample (100 µL) In the tube labeled S" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "task_type": "step_identification", "video_end": 38.5, "video_path": "videos640/XM_06.mp4", "video_start": 30.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_21", "eval_id": "monstep_0166", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Single-channel pipette used for reagent transfer.\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes.\",\"Tube racks Yellow and blue racks used to hold tubes.\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Mini centrifuge Used for a quick spin of the PCR tubes.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice during setup.\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.\",\"Ice Used to keep reagents cold during setup.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Single-channel pipette used for reagent transfer.", "Pipette tips", "PCR tubes 0.2 mL sterile tubes.", "Tube racks Yellow and blue racks used to hold tubes.", "Ice bucket Green ice bucket used to keep reagents cold.", "Mini centrifuge Used for a quick spin of the PCR tubes.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice during setup.", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.", "Ice Used to keep reagents cold during setup." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "task_type": "step_identification", "video_end": 49.0, "video_path": "videos640/XM_21.mp4", "video_start": 4.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_28", "eval_id": "monstep_0167", "operation": "Freeze_Cells_Right_1", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Petri dish Contains the cell culture\",\"Serological pipette Used for aspirating medium\",\"Micropipette Eppendorf brand used for adding reagents\",\"Centrifuge tube Used for collecting harvested cells\",\"Tube rack Blue rack holding reagent tubes\"],\"history\":[{\"step\":\"1.1\",\"tas\":22,\"tds\":22},{\"step\":\"1.2\",\"tas\":39,\"tds\":16},{\"step\":\"1.3\",\"tas\":49,\"tds\":9},{\"step\":\"1.4\",\"tas\":72,\"tds\":8}],\"objects\":{},\"on\":\"1.4\",\"protocol\":[{\"desc\":\"Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Aspirate culture medium from the petri dish.\",\"order\":2,\"step\":\"1.1\"},{\"desc\":\"Add PBS wash buffer to the dish.\",\"order\":3,\"step\":\"1.2\"},{\"desc\":\"Swirl the dish to wash the cell monolayer.\",\"order\":4,\"step\":\"1.3\"},{\"desc\":\"Add trypsin solution to the dish to detach cells.\",\"order\":5,\"step\":\"1.4\"},{\"desc\":\"Collect the cell suspension into a centrifuge tube.\",\"order\":6,\"step\":\"1.5\"}],\"protocol_summary\":\"The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.\",\"reagents\":[\"Culture medium Pink liquid in the petri dish\",\"PBS Visible in a tube labeled 'PBS 2X'\",\"Trypsin Visible in a tube labeled 'Tryp'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Harvesting by Trypsinization", "state": { "equipment": [ "Petri dish Contains the cell culture", "Serological pipette Used for aspirating medium", "Micropipette Eppendorf brand used for adding reagents", "Centrifuge tube Used for collecting harvested cells", "Tube rack Blue rack holding reagent tubes" ], "history": [ { "step": "1.1", "tas": 22, "tds": 22 }, { "step": "1.2", "tas": 39, "tds": 16 }, { "step": "1.3", "tas": 49, "tds": 9 }, { "step": "1.4", "tas": 72, "tds": 8 } ], "objects": {}, "on": "1.4", "protocol": [ { "desc": "Harvest cells at ~80% confluency by trypsinization or scraping as appropriate.", "order": 1, "step": "1" }, { "desc": "Aspirate culture medium from the petri dish.", "order": 2, "step": "1.1" }, { "desc": "Add PBS wash buffer to the dish.", "order": 3, "step": "1.2" }, { "desc": "Swirl the dish to wash the cell monolayer.", "order": 4, "step": "1.3" }, { "desc": "Add trypsin solution to the dish to detach cells.", "order": 5, "step": "1.4" }, { "desc": "Collect the cell suspension into a centrifuge tube.", "order": 6, "step": "1.5" } ], "protocol_summary": "The procedure involves harvesting adherent cells from a culture dish using trypsinization, including medium removal, washing, and collection into a centrifuge tube.", "reagents": [ "Culture medium Pink liquid in the petri dish", "PBS Visible in a tube labeled 'PBS 2X'", "Trypsin Visible in a tube labeled 'Tryp'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1.5", "target_step_text": "Collect the cell suspension into a centrifuge tube.", "task_type": "step_identification", "video_end": 77.5, "video_path": "videos640/XM_28.mp4", "video_start": 72.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_54", "eval_id": "monstep_0168", "operation": "Virus_packging_tranfection_of_293T_cells (1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL tube sterile\",\"pipette\",\"vortex mixer\",\"10 cm dish containing HEK293T cells\",\"CO2 incubator\",\"TC hood\"],\"history\":[{\"step\":\"2\",\"tas\":30,\"tds\":25}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mi x dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "1.5 mL tube sterile", "pipette", "vortex mixer", "10 cm dish containing HEK293T cells", "CO2 incubator", "TC hood" ], "history": [ { "step": "2", "tas": 30, "tds": 25 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mi x dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "task_type": "step_identification", "video_end": 43.5, "video_path": "videos640/DJI_54.mp4", "video_start": 30.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_47", "eval_id": "monstep_0169", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\",\"ice bucket Used to keep lentivirus cold during thawing.\"],\"history\":[{\"step\":\"2\",\"tas\":10,\"tds\":10}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium to enhance infection.\",\"culture medium\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂).", "ice bucket Used to keep lentivirus cold during thawing." ], "history": [ { "step": "2", "tas": 10, "tds": 10 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection efficiency, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium to enhance infection.", "culture medium" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "task_type": "step_identification", "video_end": 40.5, "video_path": "videos640/DJI_47.mp4", "video_start": 19.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_49_RT", "eval_id": "monstep_0170", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place apprpriate spin column in collection tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.050 mL Buffer EB (Elution)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place apprpriate spin column in collection tube", "order": 1, "step": "1" }, { "desc": "Apply 0.050 mL Buffer EB (Elution)", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 4, "step": "4" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Apply 0.050 mL Buffer EB (Elution)", "task_type": "step_identification", "video_end": 53.5, "video_path": "videos640/MV_02_49_RT.mp4", "video_start": 10.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_30_OUT", "eval_id": "monstep_0171", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Apply 0.5 mL Buffer PB (Wash 1) to spin columns\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Discard flowthrough to appropriate waste container", "order": 1, "step": "1" }, { "desc": "Apply 0.5 mL Buffer PB (Wash 1) to spin columns", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Apply 0.5 mL Buffer PB (Wash 1) to spin columns", "task_type": "step_identification", "video_end": 28.5, "video_path": "videos640/MV_02_30_OUT.mp4", "video_start": 18.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_16", "eval_id": "monstep_0172", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[{\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"objects\":{},\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.", "pipette Adjustable volume micropipette.", "ice bucket Green ice bucket used for thawing samples.", "microtube Sterile microcentrifuge tube for mixing." ], "history": [ { "step": "2.1", "tas": 15, "tds": 10 } ], "objects": {}, "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA samples (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer.", "Invitrogen E-gel cassette Pre-cast agarose gel cassette." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2.2", "target_step_text": "2 µL 6× E-gel loading buffer", "task_type": "step_identification", "video_end": 25.5, "video_path": "videos640/XM_16.mp4", "video_start": 15.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_08", "eval_id": "monstep_0173", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":5},{\"step\":\"3\",\"tas\":22,\"tds\":15},{\"step\":\"4\",\"tas\":44,\"tds\":7},{\"step\":\"5\",\"tas\":52,\"tds\":3},{\"step\":\"6\",\"tas\":64,\"tds\":5},{\"step\":\"8\",\"tas\":85,\"tds\":8},{\"step\":\"9\",\"tas\":89,\"tds\":2},{\"step\":\"10\",\"tas\":94,\"tds\":4},{\"step\":\"11\",\"tas\":112,\"tds\":6},{\"step\":\"12\",\"tas\":121,\"tds\":2},{\"step\":\"13\",\"tas\":148,\"tds\":27},{\"step\":\"14\",\"tas\":152,\"tds\":4},{\"step\":\"15\",\"tas\":166,\"tds\":12},{\"step\":\"16\",\"tas\":180,\"tds\":7}],\"objects\":{},\"on\":\"16\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [ { "step": "1", "tas": 6, "tds": 5 }, { "step": "3", "tas": 22, "tds": 15 }, { "step": "4", "tas": 44, "tds": 7 }, { "step": "5", "tas": 52, "tds": 3 }, { "step": "6", "tas": 64, "tds": 5 }, { "step": "8", "tas": 85, "tds": 8 }, { "step": "9", "tas": 89, "tds": 2 }, { "step": "10", "tas": 94, "tds": 4 }, { "step": "11", "tas": 112, "tds": 6 }, { "step": "12", "tas": 121, "tds": 2 }, { "step": "13", "tas": 148, "tds": 27 }, { "step": "14", "tas": 152, "tds": 4 }, { "step": "15", "tas": 166, "tds": 12 }, { "step": "16", "tas": 180, "tds": 7 } ], "objects": {}, "on": "16", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "18", "target_step_text": "Add 5ml cell suspension to new 10cm dish", "task_type": "step_identification", "video_end": 206.5, "video_path": "videos640/DJI_08.mp4", "video_start": 200.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_40", "eval_id": "monstep_0174", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains the target cells for infection.\",\"Pipette Used for adding polybrene and lentivirus.\",\"Ice bucket Used to keep the lentivirus aliquot cold.\",\"Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2.\"],\"history\":[{\"step\":\"3\",\"tas\":14,\"tds\":13}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.\",\"reagents\":[\"Lentivirus Thawed on ice prior to use.\",\"Polybrene Added to culture medium to enhance viral entry.\",\"Culture medium Medium already present in the 10 cm dish with cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains the target cells for infection.", "Pipette Used for adding polybrene and lentivirus.", "Ice bucket Used to keep the lentivirus aliquot cold.", "Incubator Thermo Scientific Heracell incubator set to 37°C, 5% CO2." ], "history": [ { "step": "3", "tas": 14, "tds": 13 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells, such as iPSCs, with lentivirus by adding polybrene to enhance infection efficiency, followed by the viral suspension, and incubating the cells.", "reagents": [ "Lentivirus Thawed on ice prior to use.", "Polybrene Added to culture medium to enhance viral entry.", "Culture medium Medium already present in the 10 cm dish with cells." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "task_type": "step_identification", "video_end": 34.5, "video_path": "videos640/XM_40.mp4", "video_start": 17.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_01_LT", "eval_id": "monstep_0175", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Thaw DNA", "order": 2, "step": "2" }, { "desc": "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "order": 3, "step": "3" }, { "desc": "Add DNA substrate (Plasmid or PCR product) to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "task_type": "step_identification", "video_end": 49.0, "video_path": "videos640/MV_03_01_LT.mp4", "video_start": 4.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_29", "eval_id": "monstep_0176", "operation": "Freeze_Cells_Right_2", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 mL conical tube\",\"centrifuge Model MD-550 visible.\",\"pipette 1000 uL micropipette used for transfer.\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Transfer the cell suspension into a 15 mL conical tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Centrifuge at 300 × g for 5 minutes at room temperature.\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"This procedure involves transferring a cell suspension from a culture vessel into a conical tube followed by centrifugation to pellet the cells.\",\"reagents\":[\"cell suspension Cells resuspended in medium within a petri dish.\",\"DMEM Used for resuspending cells in the dish.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Suspension Transfer and Centrifugation", "state": { "equipment": [ "15 mL conical tube", "centrifuge Model MD-550 visible.", "pipette 1000 uL micropipette used for transfer." ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Transfer the cell suspension into a 15 mL conical tube.", "order": 1, "step": "1" }, { "desc": "Centrifuge at 300 × g for 5 minutes at room temperature.", "order": 2, "step": "2" } ], "protocol_summary": "This procedure involves transferring a cell suspension from a culture vessel into a conical tube followed by centrifugation to pellet the cells.", "reagents": [ "cell suspension Cells resuspended in medium within a petri dish.", "DMEM Used for resuspending cells in the dish." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Transfer the cell suspension into a 15 mL conical tube.", "task_type": "step_identification", "video_end": 82.5, "video_path": "videos640/XM_29.mp4", "video_start": 59.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_10", "eval_id": "monstep_0177", "operation": "CRISPR Delivery (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Sterile\",\"Pipette Adjustable volume pipette\",\"Pipette tips Disposable tips\",\"10 cm dish Cell culture dish\",\"Tube rack Holds EP tubes\",\"Tip box Holds pipette tips\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Reagent 1\",\"Reagent 2\",\"Reagent 3\",\"293T cells Cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery Protocol", "state": { "equipment": [ "1.5 mL EP tube Sterile", "Pipette Adjustable volume pipette", "Pipette tips Disposable tips", "10 cm dish Cell culture dish", "Tube rack Holds EP tubes", "Tip box Holds pipette tips" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the preparation of a CRISPR delivery mixture by combining three reagents in an EP tube, followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Reagent 1", "Reagent 2", "Reagent 3", "293T cells Cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add reagent 2 into the EP tube.", "task_type": "step_identification", "video_end": 34.5, "video_path": "videos640/DJI_10.mp4", "video_start": 19.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_39", "eval_id": "monstep_0178", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"TC hood Biosafety cabinet for sterile work\",\"1.5 mL tube Sterile tube for mixing plasmids\",\"10 cm dish Cell culture dish\",\"pipette Adjustable micropipettes\",\"incubator CO2 incubator for cell culture\"],\"history\":[{\"step\":\"2\",\"tas\":89,\"tds\":89}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Packaging and Transfection of HEK293T Cells", "state": { "equipment": [ "TC hood Biosafety cabinet for sterile work", "1.5 mL tube Sterile tube for mixing plasmids", "10 cm dish Cell culture dish", "pipette Adjustable micropipettes", "incubator CO2 incubator for cell culture" ], "history": [ { "step": "2", "tas": 89, "tds": 89 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "task_type": "step_identification", "video_end": 139.0, "video_path": "videos640/DJI_39.mp4", "video_start": 94.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_23", "eval_id": "monstep_0179", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":20,\"tds\":15},{\"step\":\"3\",\"tas\":37,\"tds\":16},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":58,\"tds\":10},{\"step\":\"6\",\"tas\":73,\"tds\":14},{\"step\":\"7\",\"tas\":100,\"tds\":27},{\"step\":\"8\",\"tas\":110,\"tds\":2}],\"objects\":{},\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 20, "tds": 15 }, { "step": "3", "tas": 37, "tds": 16 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 58, "tds": 10 }, { "step": "6", "tas": 73, "tds": 14 }, { "step": "7", "tas": 100, "tds": 27 }, { "step": "8", "tas": 110, "tds": 2 } ], "objects": {}, "on": "9", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "10", "target_step_text": "Start the program.", "task_type": "step_identification", "video_end": 120.205, "video_path": "videos640/XM_23.mp4", "video_start": 117.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_08_CH", "eval_id": "monstep_0180", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":11,\"tds\":11}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 11, "tds": 11 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispose of 5mL pipet tip", "task_type": "step_identification", "video_end": 32.5, "video_path": "videos640/MV_01_08_CH.mp4", "video_start": 25.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_01_HG", "eval_id": "monstep_0181", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":53,\"tds\":53},{\"step\":\"2\",\"tas\":104,\"tds\":9},{\"step\":\"3\",\"tas\":127,\"tds\":0}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Label a clean 0.5 mL or 1.5 mL microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw DNA\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add DNA substrate (Plasmid or PCR product) to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 53, "tds": 53 }, { "step": "2", "tas": 104, "tds": 9 }, { "step": "3", "tas": 127, "tds": 0 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Label a clean 0.5 mL or 1.5 mL microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Thaw DNA", "order": 2, "step": "2" }, { "desc": "Retrieve Restriction Enzymes from -20°C freezer and place immediately in benchtop cold block", "order": 3, "step": "3" }, { "desc": "Add DNA substrate (Plasmid or PCR product) to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Add DNA substrate (Plasmid or PCR product) to the tube", "task_type": "step_identification", "video_end": 265.5, "video_path": "videos640/MV_03_01_HG.mp4", "video_start": 220.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_35", "eval_id": "monstep_0182", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base The device used to run the gel\",\"Pipette\",\"Microtube\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5}],\"objects\":{},\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer before loading\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Includes loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base The device used to run the gel", "Pipette", "Microtube" ], "history": [ { "step": "1", "tas": 5, "tds": 5 } ], "objects": {}, "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer before loading", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Includes loading buffer" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Load 10–20 µL of the prepared DNA sample into a well.", "task_type": "step_identification", "video_end": 36.5, "video_path": "videos640/DJI_35.mp4", "video_start": 19.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_30", "eval_id": "monstep_0183", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tube sterile\",\"pipette\",\"ice bucket green container with ice\",\"microcentrifuge small benchtop centrifuge\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock solution\",\"Reverse Primer (1 μL) stock solution\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach a final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "0.2 mL PCR tube sterile", "pipette", "ice bucket green container with ice", "microcentrifuge small benchtop centrifuge", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction by mixing Master Mix, primers, template DNA, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock solution", "Reverse Primer (1 μL) stock solution", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach a final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "task_type": "step_identification", "video_end": 11.5, "video_path": "videos640/DJI_30.mp4", "video_start": 1.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_08_LT", "eval_id": "monstep_0184", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":27,\"tds\":27},{\"step\":\"2\",\"tas\":308,\"tds\":32}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 27, "tds": 27 }, { "step": "2", "tas": 308, "tds": 32 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "task_type": "step_identification", "video_end": 405.5, "video_path": "videos640/MV_03_08_LT.mp4", "video_start": 360.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_09_HD", "eval_id": "monstep_0185", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Check cell density of flask", "task_type": "step_identification", "video_end": 35.5, "video_path": "videos640/MV_01_09_HD.mp4", "video_start": 3.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_04", "eval_id": "monstep_0186", "operation": "PCR reaction setup (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips in a box\",\"PCR tubes 0.2 mL sterile tubes\",\"Tube rack Green and blue racks for holding tubes\",\"Thermocycler Instrument for PCR amplification\"],\"history\":[{\"step\":\"1\",\"tas\":9,\"tds\":9},{\"step\":\"2\",\"tas\":18,\"tds\":8},{\"step\":\"3\",\"tas\":27,\"tds\":8},{\"step\":\"4\",\"tas\":37,\"tds\":9}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Forward Primer (in the tube labeled F).\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add Reverse Primer (in the tube labeled R).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add template DNA (in the tube labeled T).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.\",\"reagents\":[\"Master Mix Labeled 'M'\",\"Forward Primer Labeled 'F'\",\"Reverse Primer Labeled 'R'\",\"Template DNA Labeled 'T'\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips in a box", "PCR tubes 0.2 mL sterile tubes", "Tube rack Green and blue racks for holding tubes", "Thermocycler Instrument for PCR amplification" ], "history": [ { "step": "1", "tas": 9, "tds": 9 }, { "step": "2", "tas": 18, "tds": 8 }, { "step": "3", "tas": 27, "tds": 8 }, { "step": "4", "tas": 37, "tds": 9 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "In a sterile 0.2 mL PCR tube, add Master Mix (in the tube labeled M).", "order": 1, "step": "1" }, { "desc": "Add Forward Primer (in the tube labeled F).", "order": 2, "step": "2" }, { "desc": "Add Reverse Primer (in the tube labeled R).", "order": 3, "step": "3" }, { "desc": "Add template DNA (in the tube labeled T).", "order": 4, "step": "4" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 5, "step": "5" }, { "desc": "Place the tube into the thermocycler.", "order": 6, "step": "6" } ], "protocol_summary": "Setup of a PCR reaction by adding Master Mix, primers, and template DNA into a PCR tube, followed by mixing and placing in a thermocycler.", "reagents": [ "Master Mix Labeled 'M'", "Forward Primer Labeled 'F'", "Reverse Primer Labeled 'R'", "Template DNA Labeled 'T'" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "task_type": "step_identification", "video_end": 41.5, "video_path": "videos640/XM_04.mp4", "video_start": 37.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_38", "eval_id": "monstep_0187", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[{\"step\":\"1\",\"tas\":14,\"tds\":14}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting and Filtering", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [ { "step": "1", "tas": 14, "tds": 14 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "task_type": "step_identification", "video_end": 81.821, "video_path": "videos640/XM_38.mp4", "video_start": 44.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_03", "eval_id": "monstep_0188", "operation": "CRISPR Delivery-Modified", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 ml eppendorf tube EP tube\"],\"history\":[{\"step\":\"1\",\"tas\":17,\"tds\":16},{\"step\":\"2\",\"tas\":30,\"tds\":12},{\"step\":\"3\",\"tas\":41,\"tds\":10},{\"step\":\"4\",\"tas\":53,\"tds\":11},{\"step\":\"5\",\"tas\":77,\"tds\":23}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery-Modified", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 ml eppendorf tube EP tube" ], "history": [ { "step": "1", "tas": 17, "tds": 16 }, { "step": "2", "tas": 30, "tds": 12 }, { "step": "3", "tas": 41, "tds": 10 }, { "step": "4", "tas": 53, "tds": 11 }, { "step": "5", "tas": 77, "tds": 23 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture in an EP tube and applying it to a 10 cm dish of 293T cells.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "task_type": "step_identification", "video_end": 95.5, "video_path": "videos640/DJI_03.mp4", "video_start": 77.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_15_BL", "eval_id": "monstep_0189", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 0.350 mL of chilled Buffer N3\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix immediately and thoroughly by vigorously inverting 4–6 times\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Load sample into microcentrifuge\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 0.350 mL of chilled Buffer N3", "order": 1, "step": "1" }, { "desc": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "order": 2, "step": "2" }, { "desc": "Load sample into microcentrifuge", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Mix immediately and thoroughly by vigorously inverting 4–6 times", "task_type": "step_identification", "video_end": 39.5, "video_path": "videos640/MV_02_15_BL.mp4", "video_start": 23.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_05_LF", "eval_id": "monstep_0190", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place cell cytometer and calculator on top of cart near hood\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place cell cytometer and calculator on top of cart near hood", "order": 1, "step": "1" }, { "desc": "Label flask with Name, Date, Cell Type, Passage #, and amount being passaged (50k cells)", "order": 2, "step": "2" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Place cell cytometer and calculator on top of cart near hood", "task_type": "step_identification", "video_end": 12.5, "video_path": "videos640/MV_01_05_LF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_26_OUT", "eval_id": "monstep_0191", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Load sample into microcentrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Load sample into microcentrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Load sample into microcentrifuge", "task_type": "step_identification", "video_end": 57.5, "video_path": "videos640/MV_02_26_OUT.mp4", "video_start": 48.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_39", "eval_id": "monstep_0192", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"TC hood Biosafety cabinet for sterile work\",\"1.5 mL tube Sterile tube for mixing plasmids\",\"10 cm dish Cell culture dish\",\"pipette Adjustable micropipettes\",\"incubator CO2 incubator for cell culture\"],\"history\":[{\"step\":\"2\",\"tas\":89,\"tds\":89},{\"step\":\"3\",\"tas\":143,\"tds\":53}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Packaging and Transfection of HEK293T Cells", "state": { "equipment": [ "TC hood Biosafety cabinet for sterile work", "1.5 mL tube Sterile tube for mixing plasmids", "10 cm dish Cell culture dish", "pipette Adjustable micropipettes", "incubator CO2 incubator for cell culture" ], "history": [ { "step": "2", "tas": 89, "tds": 89 }, { "step": "3", "tas": 143, "tds": 53 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone, packaging, and envelope plasmids using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "task_type": "step_identification", "video_end": 161.5, "video_path": "videos640/DJI_39.mp4", "video_start": 143.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_20_HD", "eval_id": "monstep_0193", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 10 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve tubes from centrifuge to rack\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 10 min", "order": 1, "step": "1" }, { "desc": "Retrieve tubes from centrifuge to rack", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Start centrifuge at maximum speed (≥10,000 rpm) for 10 min", "task_type": "step_identification", "video_end": 563.5, "video_path": "videos640/MV_02_20_HD.mp4", "video_start": 554.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_23", "eval_id": "monstep_0194", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume pipette\",\"Pipette tips Sterile tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Used to keep reagents cold\",\"Microcentrifuge Used for quick spin\",\"Bio-Rad T100 Thermal Cycler Used for PCR amplification\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2\",\"tas\":20,\"tds\":15},{\"step\":\"3\",\"tas\":37,\"tds\":16},{\"step\":\"4\",\"tas\":47,\"tds\":9},{\"step\":\"5\",\"tas\":58,\"tds\":10},{\"step\":\"6\",\"tas\":73,\"tds\":14},{\"step\":\"7\",\"tas\":100,\"tds\":27}],\"objects\":{},\"on\":\"8\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice\",\"Forward Primer (1 μL) Kept on ice\",\"Reverse Primer (1 μL) Kept on ice\",\"Template DNA (2 μL) Kept on ice\",\"Nuclease-free water (8.5 μL) Kept on ice\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume pipette", "Pipette tips Sterile tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Used to keep reagents cold", "Microcentrifuge Used for quick spin", "Bio-Rad T100 Thermal Cycler Used for PCR amplification" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2", "tas": 20, "tds": 15 }, { "step": "3", "tas": 37, "tds": 16 }, { "step": "4", "tas": 47, "tds": 9 }, { "step": "5", "tas": 58, "tds": 10 }, { "step": "6", "tas": 73, "tds": 14 }, { "step": "7", "tas": 100, "tds": 27 } ], "objects": {}, "on": "8", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a 25 μL PCR reaction, including reagent addition on ice, mixing, and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice", "Forward Primer (1 μL) Kept on ice", "Reverse Primer (1 μL) Kept on ice", "Template DNA (2 μL) Kept on ice", "Nuclease-free water (8.5 μL) Kept on ice" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "9", "target_step_text": "Program the cycler or load pre-configured program:", "task_type": "step_identification", "video_end": 118.5, "video_path": "videos640/XM_23.mp4", "video_start": 109.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_43", "eval_id": "monstep_0195", "operation": "PSC-Fibroblast Harvest and Lysis with QuickExtract", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Incubator Used for pre-seeding and post-infection culture\",\"96-well plate Pre-seeded with iPSC-fibroblasts\",\"Multichannel pipette Used for medium replacement and buffer addition\",\"Single channel pipette Used for adding virus to specific wells\",\"Marker Used for recording infection details on the plate\",\"Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve pre-seeded iPSC-fibroblast plates from the incubator.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"(Optional) Replace culture medium with fresh infection medium as needed.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 20 µL of the appropriate virus to each well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently rock the plate to evenly distribute the virus.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Record the infection start time and group assignments on the plate.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Return plates to the incubator and culture for 72 hours.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.\",\"reagents\":[\"Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus\",\"Control lentivirus (20 µL per well)\",\"Infection medium Fresh culture medium used for infection\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of iPSC-fibroblasts", "state": { "equipment": [ "Incubator Used for pre-seeding and post-infection culture", "96-well plate Pre-seeded with iPSC-fibroblasts", "Multichannel pipette Used for medium replacement and buffer addition", "Single channel pipette Used for adding virus to specific wells", "Marker Used for recording infection details on the plate", "Bio-Rad C1000 Touch Thermal Cycler Observed in video instead of incubator for the final step" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Thaw purified Lenti-Cas12a-U6-TGFBR1 and control lentivirus on ice.", "order": 1, "step": "1" }, { "desc": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "order": 2, "step": "2" }, { "desc": "(Optional) Replace culture medium with fresh infection medium as needed.", "order": 3, "step": "3" }, { "desc": "Add 20 µL of the appropriate virus to each well.", "order": 4, "step": "4" }, { "desc": "Gently rock the plate to evenly distribute the virus.", "order": 5, "step": "5" }, { "desc": "Record the infection start time and group assignments on the plate.", "order": 6, "step": "6" }, { "desc": "Return plates to the incubator and culture for 72 hours.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the process of infecting pre-seeded iPSC-fibroblast plates with Lenti-Cas12a-U6-TGFBR1 or control lentivirus, followed by incubation for 72 hours.", "reagents": [ "Lenti-Cas12a-U6-TGFBR1 (20 µL per well) Purified lentivirus", "Control lentivirus (20 µL per well)", "Infection medium Fresh culture medium used for infection" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Retrieve pre-seeded iPSC-fibroblast plates from the incubator.", "task_type": "step_identification", "video_end": 8.5, "video_path": "videos640/XM_43.mp4", "video_start": 0.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_39", "eval_id": "monstep_0196", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "task_type": "step_identification", "video_end": 16.5, "video_path": "videos640/XM_39.mp4", "video_start": 3.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_21", "eval_id": "monstep_0197", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Single-channel pipette used for reagent transfer.\",\"Pipette tips\",\"PCR tubes 0.2 mL sterile tubes.\",\"Tube racks Yellow and blue racks used to hold tubes.\",\"Ice bucket Green ice bucket used to keep reagents cold.\",\"Mini centrifuge Used for a quick spin of the PCR tubes.\",\"Thermocycler Bio-Rad T100 Thermal Cycler.\"],\"history\":[{\"step\":\"2\",\"tas\":53,\"tds\":53}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL) Kept on ice during setup.\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.\",\"Ice Used to keep reagents cold during setup.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Single-channel pipette used for reagent transfer.", "Pipette tips", "PCR tubes 0.2 mL sterile tubes.", "Tube racks Yellow and blue racks used to hold tubes.", "Ice bucket Green ice bucket used to keep reagents cold.", "Mini centrifuge Used for a quick spin of the PCR tubes.", "Thermocycler Bio-Rad T100 Thermal Cycler." ], "history": [ { "step": "2", "tas": 53, "tds": 53 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "This protocol describes the preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by centrifugation and thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL) Kept on ice during setup.", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL) Used to reach a final volume of 25 μL.", "Ice Used to keep reagents cold during setup." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "task_type": "step_identification", "video_end": 64.5, "video_path": "videos640/XM_21.mp4", "video_start": 53.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_02_36_HD", "eval_id": "monstep_0198", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard flowthrough to appropriate waste container\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard flowthrough to appropriate waste container", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Retrieve spin column from centrifuge to rack", "task_type": "step_identification", "video_end": 22.5, "video_path": "videos640/MV_02_36_HD.mp4", "video_start": 15.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_24", "eval_id": "monstep_0199", "operation": "Serial_Dilution_Wrong", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"PCR tubes sterile\",\"pipette\",\"pipette tips\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.\",\"reagents\":[\"original sample\",\"buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Protocol", "state": { "equipment": [ "PCR tubes sterile", "pipette", "pipette tips" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "A standard serial dilution procedure involving marking tubes and sequentially transferring volumes to achieve decreasing concentrations.", "reagents": [ "original sample", "buffer" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "task_type": "step_identification", "video_end": 44.5, "video_path": "videos640/XM_24.mp4", "video_start": 1.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_15_LF", "eval_id": "monstep_0200", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12},{\"step\":\"2\",\"tas\":23,\"tds\":11}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 12, "tds": 12 }, { "step": "2", "tas": 23, "tds": 11 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Collect 2nd 750uL of trypsin", "task_type": "step_identification", "video_end": 31.0, "video_path": "videos640/MV_01_15_LF.mp4", "video_start": 26.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_20", "eval_id": "monstep_0201", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[{\"step\":\"1\",\"tas\":18,\"tds\":18},{\"step\":\"2\",\"tas\":19,\"tds\":1},{\"step\":\"3\",\"tas\":25,\"tds\":6}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation Protocol", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [ { "step": "1", "tas": 18, "tds": 18 }, { "step": "2", "tas": 19, "tds": 1 }, { "step": "3", "tas": 25, "tds": 6 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Immediately return the tube to ice for 5 seconds.", "task_type": "step_identification", "video_end": 37.5, "video_path": "videos640/DJI_20.mp4", "video_start": 35.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_03_05_LT", "eval_id": "monstep_0202", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Allow flask to cool on the benchtop to approximately 55°C\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Acquire DNA Dye and buffer and place on ice\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Place flask in microwave and heat until boil, then remove flask using heat-resistant gloves and swirl gently. Repeate until clear", "order": 1, "step": "1" }, { "desc": "Allow flask to cool on the benchtop to approximately 55°C", "order": 2, "step": "2" }, { "desc": "Assemble the gel casting tray with rubber end caps or masking tape and seal with agarose", "order": 3, "step": "3" }, { "desc": "Acquire DNA Dye and buffer and place on ice", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Allow flask to cool on the benchtop to approximately 55°C", "task_type": "step_identification", "video_end": 226.5, "video_path": "videos640/MV_03_05_LT.mp4", "video_start": 222.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_12", "eval_id": "monstep_0203", "operation": "Loading DNA samples on E-gel (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base\",\"Pipette\",\"Pipette tips\"],\"history\":[{\"step\":\"1\",\"tas\":10,\"tds\":6},{\"step\":\"2\",\"tas\":24,\"tds\":13}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load 10 µL of the prepared DNA sample into a well.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of DNA ladder into a separate well.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.\",\"reagents\":[\"DNA sample (10 µL)\",\"DNA ladder (10 µL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base", "Pipette", "Pipette tips" ], "history": [ { "step": "1", "tas": 10, "tds": 6 }, { "step": "2", "tas": 24, "tds": 13 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 1, "step": "1" }, { "desc": "Load 10 µL of the prepared DNA sample into a well.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of DNA ladder into a separate well.", "order": 3, "step": "3" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure involves setting up an Invitrogen E-gel system by inserting the cassette, loading DNA samples and ladders into the wells, and initiating electrophoresis using the power base.", "reagents": [ "DNA sample (10 µL)", "DNA ladder (10 µL)" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Add 10 µL of DNA ladder into a separate well.", "task_type": "step_identification", "video_end": 36.5, "video_path": "videos640/XM_12.mp4", "video_start": 24.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_08", "eval_id": "monstep_0204", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":5},{\"step\":\"2\",\"tas\":27,\"tds\":13}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Preparation", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "step": "1", "tas": 6, "tds": 5 }, { "step": "2", "tas": 27, "tds": 13 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "task_type": "step_identification", "video_end": 57.091, "video_path": "videos640/XM_08.mp4", "video_start": 47.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_09_RT", "eval_id": "monstep_0205", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":105,\"tds\":105}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Load mixed samples into the gel\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place the lid on the electrophoresis tank\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Turn on the power supply and set to 110V\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 105, "tds": 105 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Load mixed samples into the gel", "order": 1, "step": "1" }, { "desc": "Place the lid on the electrophoresis tank", "order": 2, "step": "2" }, { "desc": "Turn on the power supply and set to 110V", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Place the lid on the electrophoresis tank", "task_type": "step_identification", "video_end": 113.5, "video_path": "videos640/MV_03_09_RT.mp4", "video_start": 108.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_49", "eval_id": "monstep_0206", "operation": "Lentiviral_infection_of_iPSCs(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Used for seeding target cells.\",\"pipette Used for adding reagents and virus suspension.\",\"incubator Standard culture conditions (37°C, 5% CO₂).\"],\"history\":[{\"step\":\"3\",\"tas\":17,\"tds\":17},{\"step\":\"4\",\"tas\":30,\"tds\":13}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.\",\"reagents\":[\"lentivirus Thawed on ice before use.\",\"polybrene Added to culture medium.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Used for seeding target cells.", "pipette Used for adding reagents and virus suspension.", "incubator Standard culture conditions (37°C, 5% CO₂)." ], "history": [ { "step": "3", "tas": 17, "tds": 17 }, { "step": "4", "tas": 30, "tds": 13 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including seeding cells, adding polybrene to enhance infection, and incubating the cells overnight.", "reagents": [ "lentivirus Thawed on ice before use.", "polybrene Added to culture medium." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "task_type": "step_identification", "video_end": 52.052, "video_path": "videos640/DJI_49.mp4", "video_start": 36.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_16", "eval_id": "monstep_0207", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.\",\"pipette Adjustable volume micropipette.\",\"ice bucket Green ice bucket used for thawing samples.\",\"microtube Sterile microcentrifuge tube for mixing.\"],\"history\":[{\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"step\":\"2.2\",\"tas\":25,\"tds\":9},{\"step\":\"4\",\"tas\":38,\"tds\":13},{\"step\":\"5\",\"tas\":38,\"tds\":5}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA samples (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\",\"Invitrogen E-gel cassette Pre-cast agarose gel cassette.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "E-gel power base Invitrogen E-Gel PowerSnap Plus Electrophoresis System.", "pipette Adjustable volume micropipette.", "ice bucket Green ice bucket used for thawing samples.", "microtube Sterile microcentrifuge tube for mixing." ], "history": [ { "step": "2.1", "tas": 15, "tds": 10 }, { "step": "2.2", "tas": 25, "tds": 9 }, { "step": "4", "tas": 38, "tds": 13 }, { "step": "5", "tas": 38, "tds": 5 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA samples (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer.", "Invitrogen E-gel cassette Pre-cast agarose gel cassette." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Place the Invitrogen E-gel cassette into the E-gel power base.", "task_type": "step_identification", "video_end": 45.5, "video_path": "videos640/XM_16.mp4", "video_start": 41.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_12", "eval_id": "monstep_0208", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube sterile\",\"pipette\",\"10 cm dish contains 293T cells\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.\",\"reagents\":[\"reagent 1\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery Protocol", "state": { "equipment": [ "1.5 mL EP tube sterile", "pipette", "10 cm dish contains 293T cells" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for preparing a CRISPR delivery mixture and applying it to 293T cells, including reagent mixing, incubation, and application to cell culture.", "reagents": [ "reagent 1", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add reagent 1 into a sterile 1.5 mL EP tube.", "task_type": "step_identification", "video_end": 33.5, "video_path": "videos640/DJI_12.mp4", "video_start": 0.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_25", "eval_id": "monstep_0209", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3},{\"step\":\"2\",\"tas\":17,\"tds\":13},{\"step\":\"3\",\"tas\":29,\"tds\":0},{\"step\":\"4\",\"tas\":44,\"tds\":15},{\"step\":\"5\",\"tas\":62,\"tds\":17}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC hood Tissue culture laminar flow hood.", "serological pipette Used for adding fresh medium.", "micropipette Used for adding cytokines.", "cell culture plate 6-well plate used for cell culture.", "inverted microscope EVOS imaging system." ], "history": [ { "step": "1", "tas": 3, "tds": 3 }, { "step": "2", "tas": 17, "tds": 13 }, { "step": "3", "tas": 29, "tds": 0 }, { "step": "4", "tas": 44, "tds": 15 }, { "step": "5", "tas": 62, "tds": 17 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "fresh medium Pink liquid added to the culture plate.", "cytokine Added to the medium in the culture plate." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "task_type": "step_identification", "video_end": 89.5, "video_path": "videos640/DJI_25.mp4", "video_start": 73.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_20", "eval_id": "monstep_0210", "operation": "Transformation (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"pipette\",\"ice bucket green container with ice\",\"thermal cycler used for heat shock at 42°C\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 5 μL of plasmid DNA to the competent E. coli cells.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Mix gently by flicking the tube 4-5 times.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Incubate the DNA-cell mixture on ice for 5 seconds.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Immediately return the tube to ice for 5 seconds.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Invert the plates.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.\",\"reagents\":[\"plasmid DNA (5 μL)\",\"competent E. coli cells\",\"LB agar plate containing appropriate selective antibiotic\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Bacterial Transformation Protocol", "state": { "equipment": [ "pipette", "ice bucket green container with ice", "thermal cycler used for heat shock at 42°C" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "order": 1, "step": "1" }, { "desc": "Mix gently by flicking the tube 4-5 times.", "order": 2, "step": "2" }, { "desc": "Incubate the DNA-cell mixture on ice for 5 seconds.", "order": 3, "step": "3" }, { "desc": "Rapidly transfer the tube to a pre-heated 42°C water bath for exactly 5 seconds.", "order": 4, "step": "4" }, { "desc": "Immediately return the tube to ice for 5 seconds.", "order": 5, "step": "5" }, { "desc": "Spread 50μL of culture onto an LB agar plate containing the appropriate selective antibiotic.", "order": 6, "step": "6" }, { "desc": "Invert the plates.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for introducing plasmid DNA into competent E. coli cells via heat shock, followed by plating on selective media.", "reagents": [ "plasmid DNA (5 μL)", "competent E. coli cells", "LB agar plate containing appropriate selective antibiotic" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add 5 μL of plasmid DNA to the competent E. coli cells.", "task_type": "step_identification", "video_end": 18.5, "video_path": "videos640/DJI_20.mp4", "video_start": 0.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_39", "eval_id": "monstep_0211", "operation": "Lentiviral_infection_of_iPSCs", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish contains target cells\",\"pipette used for adding polybrene and virus\",\"ice bucket used for thawing virus\",\"CO2 incubator 37°C, 5% CO2\"],\"history\":[{\"step\":\"3\",\"tas\":16,\"tds\":12},{\"step\":\"2\",\"tas\":28,\"tds\":3},{\"step\":\"4\",\"tas\":43,\"tds\":15}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.\",\"reagents\":[\"lentivirus aliquot\",\"polybrene final concentration in culture medium\",\"culture medium pink liquid in bottle and dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish contains target cells", "pipette used for adding polybrene and virus", "ice bucket used for thawing virus", "CO2 incubator 37°C, 5% CO2" ], "history": [ { "step": "3", "tas": 16, "tds": 12 }, { "step": "2", "tas": 28, "tds": 3 }, { "step": "4", "tas": 43, "tds": 15 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including thawing the virus, adding polybrene to the medium, and incubating the cells.", "reagents": [ "lentivirus aliquot", "polybrene final concentration in culture medium", "culture medium pink liquid in bottle and dish" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Gently swirl the plate to ensure even distribution.", "task_type": "step_identification", "video_end": 52.5, "video_path": "videos640/XM_39.mp4", "video_start": 44.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_03_08_TD", "eval_id": "monstep_0212", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":27,\"tds\":27},{\"step\":\"2\",\"tas\":308,\"tds\":32},{\"step\":\"3\",\"tas\":406,\"tds\":46}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Transfer 2 µL of TE to the microcentrifuge tube containing the ladder\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Gently pull the comb straight upward out of the gel\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 27, "tds": 27 }, { "step": "2", "tas": 308, "tds": 32 }, { "step": "3", "tas": 406, "tds": 46 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Transfer 2 µL of TE to the microcentrifuge tube containing the ladder", "order": 1, "step": "1" }, { "desc": "Gently pull the comb straight upward out of the gel", "order": 2, "step": "2" }, { "desc": "Pour 1X TAE or TBE Buffer into the tank until the gel is completely submerged", "order": 3, "step": "3" }, { "desc": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Pipette 5.0 µL of DNA Ladder (Marker) into Lane 1", "task_type": "step_identification", "video_end": 1098.017, "video_path": "videos640/MV_03_08_TD.mp4", "video_start": 1059.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_07_BL", "eval_id": "monstep_0213", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":251,\"tds\":251}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 0.250 mL of Buffer P2\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 251, "tds": 251 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 0.250 mL of Buffer P1 to bacterial pellet and Resuspend bacteria by vortexing or pipetting up and down", "order": 1, "step": "1" }, { "desc": "Add 0.250 mL of Buffer P2", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add 0.250 mL of Buffer P2", "task_type": "step_identification", "video_end": 308.0, "video_path": "videos640/MV_02_07_BL.mp4", "video_start": 263.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_33", "eval_id": "monstep_0214", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen E-Gel iBase Power System\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":6}],\"objects\":{},\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen E-Gel iBase Power System", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "step": "1", "tas": 6, "tds": 6 } ], "objects": {}, "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "DNA samples are mixed with loading buffer and loaded onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Place the Invitrogen E-gel cassette into the E-gel power base.", "task_type": "step_identification", "video_end": 39.5, "video_path": "videos640/DJI_33.mp4", "video_start": 34.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_32", "eval_id": "monstep_0215", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen iBase or similar\",\"pipette\",\"microtube\",\"ice bucket Green container with ice\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2.1\",\"tas\":15,\"tds\":10},{\"step\":\"2.2\",\"tas\":31,\"tds\":15},{\"step\":\"4\",\"tas\":39,\"tds\":6},{\"step\":\"5\",\"tas\":43,\"tds\":3},{\"step\":\"3\",\"tas\":49,\"tds\":5}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen iBase or similar", "pipette", "microtube", "ice bucket Green container with ice" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2.1", "tas": 15, "tds": 10 }, { "step": "2.2", "tas": 31, "tds": 15 }, { "step": "4", "tas": 39, "tds": 6 }, { "step": "5", "tas": 43, "tds": 3 }, { "step": "3", "tas": 49, "tds": 5 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes preparing DNA samples with loading buffer and loading them onto an Invitrogen E-gel cassette for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Press the “Run” button on the E-gel power base to start electrophoresis.", "task_type": "step_identification", "video_end": 57.257, "video_path": "videos640/DJI_32.mp4", "video_start": 49.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_04", "eval_id": "monstep_0216", "operation": "Passaging&Seeding cells", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm petri dish\",\"24-well cell culture plate\",\"BrandTech Transferpette Electronic pipette controller.\",\"Micropipette\",\"CO2 Incubator Heracell VIOS 160i.\"],\"history\":[{\"step\":\"2\",\"tas\":64,\"tds\":64},{\"step\":\"3\",\"tas\":262,\"tds\":197},{\"step\":\"4\",\"tas\":294,\"tds\":31}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Aspirate the old medium from the 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Wash cells with 5 mL PBS and aspirate completely.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Pipette the suspension 5-10 times to break cell clumps.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Calculate the volume needed for 0.1 million cells per well in the 24-well plate.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 500 μL DMEM to each well first, then add the calculated cell volume.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently tap the plate edges to mix cells evenly.\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.\",\"order\":11,\"step\":\"11\"}],\"protocol_summary\":\"A procedure for detaching 293T cells from a 10 cm dish using trypsin, counting them, and seeding them into a 24-well plate and a new 10 cm dish for maintenance.\",\"reagents\":[\"PBS (5 mL) Used for washing cells.\",\"Trypsin-EDTA (1 mL) Used for cell detachment.\",\"Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for seeding.\",\"Trypan Blue (100 μL) Used for cell counting.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Passaging and Seeding 293T Cells", "state": { "equipment": [ "10 cm petri dish", "24-well cell culture plate", "BrandTech Transferpette Electronic pipette controller.", "Micropipette", "CO2 Incubator Heracell VIOS 160i." ], "history": [ { "step": "2", "tas": 64, "tds": 64 }, { "step": "3", "tas": 262, "tds": 197 }, { "step": "4", "tas": 294, "tds": 31 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Aspirate the old medium from the 10 cm dish.", "order": 1, "step": "1" }, { "desc": "Wash cells with 5 mL PBS and aspirate completely.", "order": 2, "step": "2" }, { "desc": "Add 1 mL trypsin-EDTA and incubate at 37°C for 2 minutes.", "order": 3, "step": "3" }, { "desc": "Tap the dish to detach cells, then add 4 mL complete medium to neutralize trypsin.", "order": 4, "step": "4" }, { "desc": "Pipette the suspension 5-10 times to break cell clumps.", "order": 5, "step": "5" }, { "desc": "Take 100 μL cell suspension, mix with 100 μL trypan blue, and count cells using a hemocytometer.", "order": 6, "step": "6" }, { "desc": "Calculate the volume needed for 0.1 million cells per well in the 24-well plate.", "order": 7, "step": "7" }, { "desc": "Add 500 μL DMEM to each well first, then add the calculated cell volume.", "order": 8, "step": "8" }, { "desc": "Gently tap the plate edges to mix cells evenly.", "order": 9, "step": "9" }, { "desc": "Transfer 1/8 of the remaining suspension to a new 10 cm dish with 10 mL fresh medium.", "order": 10, "step": "10" }, { "desc": "Incubate both the 24-well plate and 10 cm dish at 37°C with 5% CO₂.", "order": 11, "step": "11" } ], "protocol_summary": "A procedure for detaching 293T cells from a 10 cm dish using trypsin, counting them, and seeding them into a 24-well plate and a new 10 cm dish for maintenance.", "reagents": [ "PBS (5 mL) Used for washing cells.", "Trypsin-EDTA (1 mL) Used for cell detachment.", "Complete Medium (DMEM) (4 mL + 10 mL) Used to neutralize trypsin and for seeding.", "Trypan Blue (100 μL) Used for cell counting." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Pipette the suspension 5-10 times to break cell clumps.", "task_type": "step_identification", "video_end": 376.0, "video_path": "videos640/DJI_04.mp4", "video_start": 331.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_14", "eval_id": "monstep_0217", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar\",\"Micropipette\",\"Ice bucket Green container with ice\"],\"history\":[{\"step\":\"1\",\"tas\":5,\"tds\":5},{\"step\":\"2.1\",\"tas\":15,\"tds\":10}],\"objects\":{},\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA sample (10 µL) Mixed with loading buffer\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar", "Micropipette", "Ice bucket Green container with ice" ], "history": [ { "step": "1", "tas": 5, "tds": 5 }, { "step": "2.1", "tas": 15, "tds": 10 } ], "objects": {}, "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA sample (10 µL) Mixed with loading buffer", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2.2", "target_step_text": "2 µL 6× E-gel loading buffer", "task_type": "step_identification", "video_end": 25.5, "video_path": "videos640/XM_14.mp4", "video_start": 15.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_17", "eval_id": "monstep_0218", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the E-gel electrophoresis.\",\"pipette\",\"ice bucket Green container holding samples on ice.\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) With loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Used to run the E-gel electrophoresis.", "pipette", "ice bucket Green container holding samples on ice." ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation of DNA samples with loading buffer and their subsequent loading onto an Invitrogen E-gel for electrophoresis.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) With loading buffer." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Thaw DNA samples on ice if frozen.", "task_type": "step_identification", "video_end": 1.5, "video_path": "videos640/XM_17.mp4", "video_start": 0.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_06", "eval_id": "monstep_0219", "operation": "Splitting cells (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"biosafety cabinet TC hood used for sterile work.\",\"incubator Set to 37°C for cell growth and trypsinization.\",\"vacuum aspirator Used to remove media and PBS.\",\"pipette controller Used with serological pipettes.\",\"10cm dish Cell culture vessel.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":2},{\"step\":\"2\",\"tas\":10,\"tds\":7},{\"step\":\"3\",\"tas\":28,\"tds\":18},{\"step\":\"4\",\"tas\":38,\"tds\":7},{\"step\":\"5\",\"tas\":46,\"tds\":7}],\"objects\":{},\"on\":\"5\",\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Incubate at 37°C for 1 minutes\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Place dishes back\",\"order\":22,\"step\":\"22\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":23,\"step\":\"23\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Used to wash the cell surface.\",\"0.25% Trypsin-EDTA (1ml) Used for cell detachment.\",\"complete medium (5ml) Used to neutralize trypsin and resuspend cells.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Splitting Protocol", "state": { "equipment": [ "biosafety cabinet TC hood used for sterile work.", "incubator Set to 37°C for cell growth and trypsinization.", "vacuum aspirator Used to remove media and PBS.", "pipette controller Used with serological pipettes.", "10cm dish Cell culture vessel." ], "history": [ { "step": "1", "tas": 3, "tds": 2 }, { "step": "2", "tas": 10, "tds": 7 }, { "step": "3", "tas": 28, "tds": 18 }, { "step": "4", "tas": 38, "tds": 7 }, { "step": "5", "tas": 46, "tds": 7 } ], "objects": {}, "on": "5", "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Incubate at 37°C for 1 minutes", "order": 13, "step": "13" }, { "desc": "Gently tap sides of dish to help detachment", "order": 14, "step": "14" }, { "desc": "Add 5ml complete medium to dish", "order": 15, "step": "15" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 16, "step": "16" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 17, "step": "17" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 18, "step": "18" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 19, "step": "19" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 20, "step": "20" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 21, "step": "21" }, { "desc": "Place dishes back", "order": 22, "step": "22" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 23, "step": "23" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and resuspension in fresh medium for subculturing.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Used to wash the cell surface.", "0.25% Trypsin-EDTA (1ml) Used for cell detachment.", "complete medium (5ml) Used to neutralize trypsin and resuspend cells." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "6", "target_step_text": "Aspirate old medium completely using vacuum aspirator", "task_type": "step_identification", "video_end": 62.5, "video_path": "videos640/DJI_06.mp4", "video_start": 54.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_08", "eval_id": "monstep_0220", "operation": "Splitting cells (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Biosafety cabinet Sterile workspace for cell culture.\",\"CO2 Incubator Used for maintaining cell cultures at 37°C.\",\"Vacuum aspirator Used to remove waste media and PBS.\",\"Pipette controller Electronic device for serological pipetting.\",\"10cm culture dish Vessel for growing adherent cells.\",\"15ml conical tube Used for cell suspension transfer (protocol specifies 50ml).\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Spray hands with 70% ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Get all reagents\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Spray all materials with 70% ethanol before placing in hood\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Remove 10cm dish from incubator\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Place dish in biosafety cabinet\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Aspirate old medium completely using vacuum aspirator\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Tilt dish to remove residual medium from edges\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Add 3ml PBS to dish\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Gently rock dish to wash cell surface\",\"order\":9,\"step\":\"9\"},{\"desc\":\"Aspirate PBS completely\",\"order\":10,\"step\":\"10\"},{\"desc\":\"Add 1ml of 0.25% Trypsin-EDTA to 10cm dish\",\"order\":11,\"step\":\"11\"},{\"desc\":\"Ensure even distribution by tilting dish\",\"order\":12,\"step\":\"12\"},{\"desc\":\"Gently tap sides of dish to help detachment\",\"order\":13,\"step\":\"13\"},{\"desc\":\"Add 5ml complete medium to dish\",\"order\":14,\"step\":\"14\"},{\"desc\":\"Pipette up and down 5-10 times to create single cell suspension\",\"order\":15,\"step\":\"15\"},{\"desc\":\"Transfer entire 6ml cell suspension to sterile 50ml conical tube\",\"order\":16,\"step\":\"16\"},{\"desc\":\"Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)\",\"order\":17,\"step\":\"17\"},{\"desc\":\"Add 5ml cell suspension to new 10cm dish\",\"order\":18,\"step\":\"18\"},{\"desc\":\"Add 5ml fresh medium (total 10ml in dish)\",\"order\":19,\"step\":\"19\"},{\"desc\":\"Gently rock dish in cross pattern (North-South, East-West) to distribute cells\",\"order\":20,\"step\":\"20\"},{\"desc\":\"Place dishes back\",\"order\":21,\"step\":\"21\"},{\"desc\":\"Ensure dishes are level, clean-up, close hood\",\"order\":22,\"step\":\"22\"}],\"protocol_summary\":\"A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.\",\"reagents\":[\"70% ethanol Used for sterilization of hands and materials.\",\"PBS (3ml) Phosphate Buffered Saline used for washing cells.\",\"0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.\",\"Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Splitting Cells in a Biosafety Cabinet", "state": { "equipment": [ "Biosafety cabinet Sterile workspace for cell culture.", "CO2 Incubator Used for maintaining cell cultures at 37°C.", "Vacuum aspirator Used to remove waste media and PBS.", "Pipette controller Electronic device for serological pipetting.", "10cm culture dish Vessel for growing adherent cells.", "15ml conical tube Used for cell suspension transfer (protocol specifies 50ml)." ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Spray hands with 70% ethanol", "order": 1, "step": "1" }, { "desc": "Get all reagents", "order": 2, "step": "2" }, { "desc": "Spray all materials with 70% ethanol before placing in hood", "order": 3, "step": "3" }, { "desc": "Remove 10cm dish from incubator", "order": 4, "step": "4" }, { "desc": "Place dish in biosafety cabinet", "order": 5, "step": "5" }, { "desc": "Aspirate old medium completely using vacuum aspirator", "order": 6, "step": "6" }, { "desc": "Tilt dish to remove residual medium from edges", "order": 7, "step": "7" }, { "desc": "Add 3ml PBS to dish", "order": 8, "step": "8" }, { "desc": "Gently rock dish to wash cell surface", "order": 9, "step": "9" }, { "desc": "Aspirate PBS completely", "order": 10, "step": "10" }, { "desc": "Add 1ml of 0.25% Trypsin-EDTA to 10cm dish", "order": 11, "step": "11" }, { "desc": "Ensure even distribution by tilting dish", "order": 12, "step": "12" }, { "desc": "Gently tap sides of dish to help detachment", "order": 13, "step": "13" }, { "desc": "Add 5ml complete medium to dish", "order": 14, "step": "14" }, { "desc": "Pipette up and down 5-10 times to create single cell suspension", "order": 15, "step": "15" }, { "desc": "Transfer entire 6ml cell suspension to sterile 50ml conical tube", "order": 16, "step": "16" }, { "desc": "Calculate volume needed for 1:3 split (approximately 2ml of cell suspension)", "order": 17, "step": "17" }, { "desc": "Add 5ml cell suspension to new 10cm dish", "order": 18, "step": "18" }, { "desc": "Add 5ml fresh medium (total 10ml in dish)", "order": 19, "step": "19" }, { "desc": "Gently rock dish in cross pattern (North-South, East-West) to distribute cells", "order": 20, "step": "20" }, { "desc": "Place dishes back", "order": 21, "step": "21" }, { "desc": "Ensure dishes are level, clean-up, close hood", "order": 22, "step": "22" } ], "protocol_summary": "A standard procedure for passaging adherent cells, involving washing with PBS, detachment with Trypsin-EDTA, and reseeding into new culture vessels.", "reagents": [ "70% ethanol Used for sterilization of hands and materials.", "PBS (3ml) Phosphate Buffered Saline used for washing cells.", "0.25% Trypsin-EDTA (1ml) Used to detach adherent cells from the dish surface.", "Complete medium (10ml total) Cell culture medium used to neutralize trypsin and provide nutrients." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Spray hands with 70% ethanol", "task_type": "step_identification", "video_end": 6.5, "video_path": "videos640/DJI_08.mp4", "video_start": 0.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_38", "eval_id": "monstep_0221", "operation": "Virus_packging_tranfection_of_293T_cells (3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish used for cell culture and transfection\",\"1.5 mL tube used for mixing plasmids and transfection reagents\",\"pipette used for transferring reagents and transfection mix\",\"incubator used for cell culture and post-transfection incubation\",\"TC hood sterile environment for cell culture work\"],\"history\":[{\"step\":\"2\",\"tas\":80,\"tds\":80},{\"step\":\"3\",\"tas\":80,\"tds\":80}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Incubate the mixture at room temperature for 15 minutes.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add the transfection mix dropwise to the HEK293T cells.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Gently swirl the dish to evenly distribute the complex.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Incubate cells for 48–72 hours and harvest the viral supernatant.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"This protocol describes the transfection of HEK293T cells with a lentiviral backbone plasmid, packaging plasmid, and envelope plasmid using a transfection reagent to produce viral particles.\",\"reagents\":[\"lentiviral backbone plasmid (10 µg)\",\"packaging plasmid (7.5 µg)\",\"envelope plasmid (5 µg)\",\"transfection reagent (60 µL)\",\"serum-free medium (up to 300 µL)\",\"HEK293T cells cultured in a 10 cm dish\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Packaging Transfection of 293T Cells", "state": { "equipment": [ "10 cm dish used for cell culture and transfection", "1.5 mL tube used for mixing plasmids and transfection reagents", "pipette used for transferring reagents and transfection mix", "incubator used for cell culture and post-transfection incubation", "TC hood sterile environment for cell culture work" ], "history": [ { "step": "2", "tas": 80, "tds": 80 }, { "step": "3", "tas": 80, "tds": 80 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "order": 1, "step": "1" }, { "desc": "In a sterile 1.5 mL tube, mix 10 µg lentiviral backbone plasmid, 7.5 µg packaging plasmid, and 5 µg envelope plasmid.", "order": 2, "step": "2" }, { "desc": "Add 60 µL of transfection reagent and bring the volume up to 300 µL with serum-free medium.", "order": 3, "step": "3" }, { "desc": "Incubate the mixture at room temperature for 15 minutes.", "order": 4, "step": "4" }, { "desc": "Add the transfection mix dropwise to the HEK293T cells.", "order": 5, "step": "5" }, { "desc": "Gently swirl the dish to evenly distribute the complex.", "order": 6, "step": "6" }, { "desc": "Incubate cells for 48–72 hours and harvest the viral supernatant.", "order": 7, "step": "7" } ], "protocol_summary": "This protocol describes the transfection of HEK293T cells with a lentiviral backbone plasmid, packaging plasmid, and envelope plasmid using a transfection reagent to produce viral particles.", "reagents": [ "lentiviral backbone plasmid (10 µg)", "packaging plasmid (7.5 µg)", "envelope plasmid (5 µg)", "transfection reagent (60 µL)", "serum-free medium (up to 300 µL)", "HEK293T cells cultured in a 10 cm dish" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Take HEK293T cells and culture them to ~70% confluency in a 10 cm dish.", "task_type": "step_identification", "video_end": 99.5, "video_path": "videos640/DJI_38.mp4", "video_start": 80.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "XM_38", "eval_id": "monstep_0222", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting and Filtering", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "Collect viral supernatant from producer cells, filter it through a 0.45 µm syringe filter to remove debris, and aliquot into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "task_type": "step_identification", "video_end": 14.5, "video_path": "videos640/XM_38.mp4", "video_start": 0.0, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "XM_25", "eval_id": "monstep_0223", "operation": "Serial_Dilution_Right", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"PCR tubes Four sterile tubes required.\",\"pipette Used for transferring and mixing liquids.\",\"marker Used for labeling tubes.\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.\",\"reagents\":[\"original sample Used to create the dilution series.\",\"buffer Used as the diluent.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution of a Sample", "state": { "equipment": [ "PCR tubes Four sterile tubes required.", "pipette Used for transferring and mixing liquids.", "marker Used for labeling tubes." ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Mark four sterile PCR tubes as 1, 10⁻¹ 10⁻² and 10⁻³.", "order": 1, "step": "1" }, { "desc": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "order": 2, "step": "2" }, { "desc": "Add 10 µL of the original sample into the 10⁻¹ tube and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 10 µL from the 10⁻¹ tube into the 10⁻² tube, mix well. Repeat the process sequentially for 10⁻³ tubes.", "order": 4, "step": "4" } ], "protocol_summary": "This procedure describes the preparation of a serial dilution series (1, 10⁻¹, 10⁻², 10⁻³) using PCR tubes, a sample, and buffer.", "reagents": [ "original sample Used to create the dilution series.", "buffer Used as the diluent." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add 90 µL of original sample to the first tube. Add 90 µL of buffer to rest tubes.", "task_type": "step_identification", "video_end": 29.5, "video_path": "videos640/XM_25.mp4", "video_start": 2.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_65", "eval_id": "monstep_0224", "operation": "Lentiviral_infection_of_iPSCs(1st-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"10 cm dish Contains target cells.\",\"micropipette\",\"CO2 incubator Set to 37°C, 5% CO2.\",\"ice bucket Used for thawing virus.\"],\"history\":[],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Thaw the required aliquot of lentivirus on ice.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add polybrene to the culture medium at a final concentration of 8 µg/mL.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Gently swirl the plate to ensure even distribution.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.\",\"reagents\":[\"polybrene Final concentration in culture medium.\",\"lentivirus suspension Added at desired MOI.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Lentiviral Infection of Target Cells", "state": { "equipment": [ "10 cm dish Contains target cells.", "micropipette", "CO2 incubator Set to 37°C, 5% CO2.", "ice bucket Used for thawing virus." ], "history": [], "objects": {}, "on": "3", "protocol": [ { "desc": "Seed target cells in a 10 cm dish one day prior to infection to reach ~50% confluency.", "order": 1, "step": "1" }, { "desc": "Thaw the required aliquot of lentivirus on ice.", "order": 2, "step": "2" }, { "desc": "Add polybrene to the culture medium at a final concentration of 8 µg/mL.", "order": 3, "step": "3" }, { "desc": "Add the lentivirus suspension to the cells at the desired MOI (multiplicity of infection).", "order": 4, "step": "4" }, { "desc": "Gently swirl the plate to ensure even distribution.", "order": 5, "step": "5" }, { "desc": "Incubate the cells under standard culture conditions (37°C, 5% CO₂) overnight.", "order": 6, "step": "6" } ], "protocol_summary": "This protocol describes the process of infecting target cells with lentivirus, including the addition of polybrene to enhance infection efficiency and subsequent incubation.", "reagents": [ "polybrene Final concentration in culture medium.", "lentivirus suspension Added at desired MOI." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Gently swirl the plate to ensure even distribution.", "task_type": "step_identification", "video_end": 39.5, "video_path": "videos640/DJI_65.mp4", "video_start": 11.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_15", "eval_id": "monstep_0225", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Intended for mixing reagents.\",\"10 cm dish Contains 293T cells at 70-80% confluency.\",\"pipette Adjustable volume pipette used for reagent transfer.\",\"pipette tips\",\"tube rack\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for delivering CRISPR-Cas9 components into 293T cells by mixing reagents in an EP tube before adding the mixture to the cell culture dish.\",\"reagents\":[\"reagent 1 Likely a CRISPR component such as Cas9 or gRNA.\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Cas9 Delivery", "state": { "equipment": [ "1.5 mL EP tube Intended for mixing reagents.", "10 cm dish Contains 293T cells at 70-80% confluency.", "pipette Adjustable volume pipette used for reagent transfer.", "pipette tips", "tube rack" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for delivering CRISPR-Cas9 components into 293T cells by mixing reagents in an EP tube before adding the mixture to the cell culture dish.", "reagents": [ "reagent 1 Likely a CRISPR component such as Cas9 or gRNA.", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Add reagent 1 into a sterile 1.5 mL EP tube.", "task_type": "step_identification", "video_end": 31.5, "video_path": "videos640/DJI_15.mp4", "video_start": 0.0, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_34", "eval_id": "monstep_0226", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Used to run the gel.\",\"Pipette Used for mixing and loading samples.\",\"Microtube Used for mixing DNA and buffer.\"],\"history\":[{\"step\":\"1\",\"tas\":15,\"tds\":15},{\"step\":\"2.1\",\"tas\":23,\"tds\":7}],\"objects\":{},\"on\":\"2.1\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile microtube, mix:\",\"order\":2,\"step\":\"2\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"Preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, followed by starting the run on the power base.\",\"reagents\":[\"DNA sample (10 µL) Thawed on ice if frozen.\",\"6× E-gel loading buffer (2 µL) Mixed with DNA sample.\",\"DNA ladder (5 µL) Includes loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Used to run the gel.", "Pipette Used for mixing and loading samples.", "Microtube Used for mixing DNA and buffer." ], "history": [ { "step": "1", "tas": 15, "tds": 15 }, { "step": "2.1", "tas": 23, "tds": 7 } ], "objects": {}, "on": "2.1", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "In a sterile microtube, mix:", "order": 2, "step": "2" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "Preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, followed by starting the run on the power base.", "reagents": [ "DNA sample (10 µL) Thawed on ice if frozen.", "6× E-gel loading buffer (2 µL) Mixed with DNA sample.", "DNA ladder (5 µL) Includes loading buffer." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "5", "target_step_text": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "task_type": "step_identification", "video_end": 31.5, "video_path": "videos640/DJI_34.mp4", "video_start": 23.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_02_LF", "eval_id": "monstep_0227", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Disinfect Hood surface using ethanol", "task_type": "step_identification", "video_end": 23.5, "video_path": "videos640/MV_01_02_LF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_17_CH", "eval_id": "monstep_0228", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Dispense into flask\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Place flask into incubator for 5 minutes, continue to next step while waiting\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Dispense into flask", "order": 1, "step": "1" }, { "desc": "Place flask into incubator for 5 minutes, continue to next step while waiting", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Dispense into flask", "task_type": "step_identification", "video_end": 5.5, "video_path": "videos640/MV_01_17_CH.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_02_RT", "eval_id": "monstep_0229", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":87,\"tds\":87},{\"step\":\"2\",\"tas\":127,\"tds\":38}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Add 1.0 µL of Enzyme 1 to the reaction\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 1.0 µL of Enzyme 2 to the reaction\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 10X Restriction Enzyme Buffer to the tube\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 87, "tds": 87 }, { "step": "2", "tas": 127, "tds": 38 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Add 1.0 µL of Enzyme 1 to the reaction", "order": 1, "step": "1" }, { "desc": "Add 1.0 µL of Enzyme 2 to the reaction", "order": 2, "step": "2" }, { "desc": "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "order": 3, "step": "3" }, { "desc": "Add 10X Restriction Enzyme Buffer to the tube", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Pipette Nuclease-Free Water into the tube (Adjust volume to reach final reaction size)", "task_type": "step_identification", "video_end": 220.5, "video_path": "videos640/MV_03_02_RT.mp4", "video_start": 184.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_56_BL", "eval_id": "monstep_0230", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Organize benchtop\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Discard spin column and close collection tube, and properly label\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Organize benchtop", "order": 1, "step": "1" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 2, "step": "2" }, { "desc": "Discard spin column and close collection tube, and properly label", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Organize benchtop", "task_type": "step_identification", "video_end": 27.5, "video_path": "videos640/MV_02_56_BL.mp4", "video_start": 16.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_02_OUT", "eval_id": "monstep_0231", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":407,\"tds\":109}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Load bacterial culture tubes into centrifuge\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Start centrifuge at 7000 x g for 3 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Remove supernatant and keep the bacterial pellet\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [ { "step": "1", "tas": 407, "tds": 109 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Load bacterial culture tubes into centrifuge", "order": 1, "step": "1" }, { "desc": "Start centrifuge at 7000 x g for 3 min", "order": 2, "step": "2" }, { "desc": "Remove supernatant and keep the bacterial pellet", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Start centrifuge at 7000 x g for 3 min", "task_type": "step_identification", "video_end": 455.0, "video_path": "videos640/MV_02_02_OUT.mp4", "video_start": 410.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_13", "eval_id": "monstep_0232", "operation": "Loading DNA Samples on E-gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Invitrogen E-gel cassette\",\"E-gel power base Invitrogen i-Base or similar power base.\",\"pipette\",\"pipette tips\",\"microtube Sterile microtube for mixing.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3},{\"step\":\"2.1\",\"tas\":8,\"tds\":5}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Thaw DNA samples on ice if frozen.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"10 µL DNA sample\",\"order\":3,\"step\":\"2.1\"},{\"desc\":\"2 µL 6× E-gel loading buffer\",\"order\":4,\"step\":\"2.2\"},{\"desc\":\"Place the Invitrogen E-gel cassette into the E-gel power base.\",\"order\":5,\"step\":\"3\"},{\"desc\":\"Load 10–20 µL of the prepared DNA sample into a well.\",\"order\":6,\"step\":\"4\"},{\"desc\":\"Add 5 µL of DNA ladder (with loading buffer) into a separate well.\",\"order\":7,\"step\":\"5\"},{\"desc\":\"Press the “Run” button on the E-gel power base to start electrophoresis.\",\"order\":8,\"step\":\"6\"}],\"protocol_summary\":\"This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.\",\"reagents\":[\"DNA samples (10 µL) Thaw on ice if frozen.\",\"6× E-gel loading buffer (2 µL)\",\"DNA ladder (5 µL) Pre-mixed with loading buffer.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Loading DNA Samples on E-gel", "state": { "equipment": [ "Invitrogen E-gel cassette", "E-gel power base Invitrogen i-Base or similar power base.", "pipette", "pipette tips", "microtube Sterile microtube for mixing." ], "history": [ { "step": "1", "tas": 3, "tds": 3 }, { "step": "2.1", "tas": 8, "tds": 5 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Thaw DNA samples on ice if frozen.", "order": 1, "step": "1" }, { "desc": "10 µL DNA sample", "order": 3, "step": "2.1" }, { "desc": "2 µL 6× E-gel loading buffer", "order": 4, "step": "2.2" }, { "desc": "Place the Invitrogen E-gel cassette into the E-gel power base.", "order": 5, "step": "3" }, { "desc": "Load 10–20 µL of the prepared DNA sample into a well.", "order": 6, "step": "4" }, { "desc": "Add 5 µL of DNA ladder (with loading buffer) into a separate well.", "order": 7, "step": "5" }, { "desc": "Press the “Run” button on the E-gel power base to start electrophoresis.", "order": 8, "step": "6" } ], "protocol_summary": "This protocol describes the preparation and loading of DNA samples onto an Invitrogen E-gel for electrophoresis, including mixing with loading buffer and starting the run.", "reagents": [ "DNA samples (10 µL) Thaw on ice if frozen.", "6× E-gel loading buffer (2 µL)", "DNA ladder (5 µL) Pre-mixed with loading buffer." ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Place the Invitrogen E-gel cassette into the E-gel power base.", "task_type": "step_identification", "video_end": 28.5, "video_path": "videos640/XM_13.mp4", "video_start": 24.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_06_LF", "eval_id": "monstep_0233", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Open cell media bottle\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Attach 5mL pipet tip to pipette man", "order": 1, "step": "1" }, { "desc": "Open cell media bottle", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Attach 5mL pipet tip to pipette man", "task_type": "step_identification", "video_end": 10.5, "video_path": "videos640/MV_01_06_LF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_07_LT", "eval_id": "monstep_0234", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Transfer 2.5 µL of DNA sample to the microcentrifuge tube\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Transfer 14.5 µL of Water sample to the microcentrifuge tube\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Transfer 3 µL of Ladder to the microcentrifuge tube\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "order": 1, "step": "1" }, { "desc": "Transfer 14.5 µL of Water sample to the microcentrifuge tube", "order": 2, "step": "2" }, { "desc": "Transfer 3 µL of Ladder to the microcentrifuge tube", "order": 3, "step": "3" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Transfer 2.5 µL of DNA sample to the microcentrifuge tube", "task_type": "step_identification", "video_end": 49.0, "video_path": "videos640/MV_03_07_LT.mp4", "video_start": 4.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_37", "eval_id": "monstep_0235", "operation": "Virus_collecting", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting and Filtration", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "task_type": "step_identification", "video_end": 48.5, "video_path": "videos640/XM_37.mp4", "video_start": 13.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "MV_01_06_RF", "eval_id": "monstep_0236", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Attach 5mL pipet tip to pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Open cell media bottle\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Attach 5mL pipet tip to pipette man", "order": 1, "step": "1" }, { "desc": "Open cell media bottle", "order": 2, "step": "2" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Attach 5mL pipet tip to pipette man", "task_type": "step_identification", "video_end": 10.5, "video_path": "videos640/MV_01_06_RF.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_02_19_BL", "eval_id": "monstep_0237", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Start centrifuge at maximum speed (≥10,000 rpm) for 10 min\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Retrieve tubes from centrifuge to rack\",\"order\":2,\"step\":\"2\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Start centrifuge at maximum speed (≥10,000 rpm) for 10 min", "order": 1, "step": "1" }, { "desc": "Retrieve tubes from centrifuge to rack", "order": 2, "step": "2" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Start centrifuge at maximum speed (≥10,000 rpm) for 10 min", "task_type": "step_identification", "video_end": 577.5, "video_path": "videos640/MV_02_19_BL.mp4", "video_start": 568.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_08_HD", "eval_id": "monstep_0238", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":11,\"tds\":11},{\"step\":\"2\",\"tas\":26,\"tds\":15}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Dispense media into flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispose of 5mL pipet tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Place flask in incubator to warm up to 37c\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 11, "tds": 11 }, { "step": "2", "tas": 26, "tds": 15 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Tilt cell media bottle while intaking 7mL of media into 5mL pipet using pipette man", "order": 1, "step": "1" }, { "desc": "Dispense media into flask", "order": 2, "step": "2" }, { "desc": "Dispose of 5mL pipet tip", "order": 3, "step": "3" }, { "desc": "Place flask in incubator to warm up to 37c", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Place flask in incubator to warm up to 37c", "task_type": "step_identification", "video_end": 49.0, "video_path": "videos640/MV_01_08_HD.mp4", "video_start": 31.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_08", "eval_id": "monstep_0239", "operation": "Preparing a serial Dilution (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"micropipette Used for liquid transfer and mixing\",\"0.2 mL PCR tubes Four tubes labeled 1-4\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack for holding PCR tubes\"],\"history\":[{\"step\":\"1\",\"tas\":6,\"tds\":5}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.\",\"reagents\":[\"sterile water (400 µL) 100 µL per tube\",\"original sample (100 µL) Added to the first tube\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Preparation", "state": { "equipment": [ "micropipette Used for liquid transfer and mixing", "0.2 mL PCR tubes Four tubes labeled 1-4", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack for holding PCR tubes" ], "history": [ { "step": "1", "tas": 6, "tds": 5 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "Preparation of a 4-step serial dilution using PCR tubes and a micropipette to dilute a sample in sterile water.", "reagents": [ "sterile water (400 µL) 100 µL per tube", "original sample (100 µL) Added to the first tube" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "task_type": "step_identification", "video_end": 27.5, "video_path": "videos640/XM_08.mp4", "video_start": 13.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_43", "eval_id": "monstep_0240", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"biosafety cabinet TC hood\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "biosafety cabinet TC hood" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove cell debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "task_type": "step_identification", "video_end": 21.5, "video_path": "videos640/DJI_43.mp4", "video_start": 3.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_25", "eval_id": "monstep_0241", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3},{\"step\":\"2\",\"tas\":17,\"tds\":13}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC hood Tissue culture laminar flow hood.", "serological pipette Used for adding fresh medium.", "micropipette Used for adding cytokines.", "cell culture plate 6-well plate used for cell culture.", "inverted microscope EVOS imaging system." ], "history": [ { "step": "1", "tas": 3, "tds": 3 }, { "step": "2", "tas": 17, "tds": 13 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "fresh medium Pink liquid added to the culture plate.", "cytokine Added to the medium in the culture plate." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "task_type": "step_identification", "video_end": 44.5, "video_path": "videos640/DJI_25.mp4", "video_start": 28.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_02_47_BL", "eval_id": "monstep_0242", "operation": "Plasmid Purification", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Retrieve spin column from centrifuge to rack\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Plasmid purification.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Plasmid Purification", "state": { "equipment": [], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "order": 1, "step": "1" }, { "desc": "Load sample into microcentrifuge and start centrifuge at maximum speed (≥10,000 rpm) for 1 min", "order": 2, "step": "2" }, { "desc": "Retrieve spin column from centrifuge to rack", "order": 3, "step": "3" } ], "protocol_summary": "Plasmid purification.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Retrieve spin column from centrifuge and discard flowthrough to appropriate waste container before placing in rack", "task_type": "step_identification", "video_end": 64.5, "video_path": "videos640/MV_02_47_BL.mp4", "video_start": 56.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_03_06_HG", "eval_id": "monstep_0243", "operation": "Double Digest & Gel", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":48,\"tds\":48},{\"step\":\"2\",\"tas\":188,\"tds\":140},{\"step\":\"3\",\"tas\":219,\"tds\":22}],\"objects\":{},\"on\":\"4\",\"protocol\":[{\"desc\":\"Retrieve the 5 0.5mL centrifuge tubes\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Label centrifuge tubes\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Pour the liquid agarose slowly into the casting tray\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Double digest and gel electrophoresis.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Double Digest & Gel", "state": { "equipment": [], "history": [ { "step": "1", "tas": 48, "tds": 48 }, { "step": "2", "tas": 188, "tds": 140 }, { "step": "3", "tas": 219, "tds": 22 } ], "objects": {}, "on": "4", "protocol": [ { "desc": "Retrieve the 5 0.5mL centrifuge tubes", "order": 1, "step": "1" }, { "desc": "Label centrifuge tubes", "order": 2, "step": "2" }, { "desc": "Pour the liquid agarose slowly into the casting tray", "order": 3, "step": "3" }, { "desc": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "order": 4, "step": "4" } ], "protocol_summary": "Double digest and gel electrophoresis.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "4", "target_step_text": "Pipette 1.0 µL of 6X DNA Loading Dye into the Parafilm", "task_type": "step_identification", "video_end": 507.0, "video_path": "videos640/MV_03_06_HG.mp4", "video_start": 462.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_25", "eval_id": "monstep_0244", "operation": "Adding cytokine into cells (wrong)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"CO2 Incubator HERACELL VIOS 160i\",\"TC hood Tissue culture laminar flow hood.\",\"serological pipette Used for adding fresh medium.\",\"micropipette Used for adding cytokines.\",\"cell culture plate 6-well plate used for cell culture.\",\"inverted microscope EVOS imaging system.\"],\"history\":[{\"step\":\"1\",\"tas\":3,\"tds\":3}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Disinfect hands thoroughly with 70% ethanol.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add cytokine(s) to the medium at the desired working concentration.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Examine the cells under an inverted microscope to assess cell health, density, and morphology.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Place the plate back into the incubator at the correct conditions.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.\",\"reagents\":[\"70% ethanol Used for hand disinfection.\",\"fresh medium Pink liquid added to the culture plate.\",\"cytokine Added to the medium in the culture plate.\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Adding Cytokine into Cells", "state": { "equipment": [ "CO2 Incubator HERACELL VIOS 160i", "TC hood Tissue culture laminar flow hood.", "serological pipette Used for adding fresh medium.", "micropipette Used for adding cytokines.", "cell culture plate 6-well plate used for cell culture.", "inverted microscope EVOS imaging system." ], "history": [ { "step": "1", "tas": 3, "tds": 3 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Disinfect hands thoroughly with 70% ethanol.", "order": 1, "step": "1" }, { "desc": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "order": 2, "step": "2" }, { "desc": "Inside the hood, gently aspirate and discard the old medium from the culture plate without disturbing the cells.", "order": 3, "step": "3" }, { "desc": "Using a sterile pipette, add the appropriate volume of pre-warmed fresh medium to the plate.", "order": 4, "step": "4" }, { "desc": "Add cytokine(s) to the medium at the desired working concentration.", "order": 5, "step": "5" }, { "desc": "Examine the cells under an inverted microscope to assess cell health, density, and morphology.", "order": 6, "step": "6" }, { "desc": "Place the plate back into the incubator at the correct conditions.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for refreshing cell culture medium and adding cytokines to stimulate or treat cells, followed by microscopic verification and incubation.", "reagents": [ "70% ethanol Used for hand disinfection.", "fresh medium Pink liquid added to the culture plate.", "cytokine Added to the medium in the culture plate." ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Carefully remove the required cell culture plat from the incubator, and transport the plate into TC hood", "task_type": "step_identification", "video_end": 17.5, "video_path": "videos640/DJI_25.mp4", "video_start": 3.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_03_HD", "eval_id": "monstep_0245", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" }, { "desc": "Grab cell media, trypsin, and lypan blue (reagents)", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Disinfect Hood surface using ethanol", "task_type": "step_identification", "video_end": 23.5, "video_path": "videos640/MV_01_03_HD.mp4", "video_start": 0.0, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "MV_01_09_CH", "eval_id": "monstep_0246", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":4,\"tds\":4}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Retrieve flask of cells to be passaged\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Check cell density of flask\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab new pipetterman 5mL tip\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 4, "tds": 4 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Retrieve flask of cells to be passaged", "order": 1, "step": "1" }, { "desc": "Check cell density of flask", "order": 2, "step": "2" }, { "desc": "Grab new pipetterman 5mL tip", "order": 3, "step": "3" }, { "desc": "Open plastic housing sterile 5mL pipet tip, starting with the side that attaches to the pipetterman first", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Grab new pipetterman 5mL tip", "task_type": "step_identification", "video_end": 47.5, "video_path": "videos640/MV_01_09_CH.mp4", "video_start": 34.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "XM_06", "eval_id": "monstep_0247", "operation": "Preparing a serial Dilution (correct)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"0.2 mL PCR tubes Four sterile tubes\",\"pipette Adjustable volume pipette\",\"pipette tips\",\"marker Used for labeling tubes\",\"tube rack Green rack used to hold PCR tubes\"],\"history\":[],\"objects\":{},\"on\":null,\"protocol\":[{\"desc\":\"Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add 100 µL of sterile water (in the tube labeled H2O) to each tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.\",\"order\":6,\"step\":\"6\"}],\"protocol_summary\":\"A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.\",\"reagents\":[\"sterile water (100 µL) In the tube labeled H2O\",\"original sample (100 µL) In the tube labeled S\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Serial Dilution Preparation", "state": { "equipment": [ "0.2 mL PCR tubes Four sterile tubes", "pipette Adjustable volume pipette", "pipette tips", "marker Used for labeling tubes", "tube rack Green rack used to hold PCR tubes" ], "history": [], "objects": {}, "on": null, "protocol": [ { "desc": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "order": 1, "step": "1" }, { "desc": "Add 100 µL of sterile water (in the tube labeled H2O) to each tube.", "order": 2, "step": "2" }, { "desc": "Add 100 µL of the original sample (in the tube labeled S) into the tube 1 and mix well by pipetting.", "order": 3, "step": "3" }, { "desc": "Transfer 100 µL from the tube 1 into the tube 2, mix well by pipetting.", "order": 4, "step": "4" }, { "desc": "Transfer 100 µL from the tube 2 into the tube 3, mix well by pipetting.", "order": 5, "step": "5" }, { "desc": "Transfer 100 µL from the tube 3 into the tube 4, mix well by pipetting.", "order": 6, "step": "6" } ], "protocol_summary": "A procedure to prepare a serial dilution by labeling PCR tubes, adding a diluent (sterile water), and sequentially transferring a sample through the tubes while mixing.", "reagents": [ "sterile water (100 µL) In the tube labeled H2O", "original sample (100 µL) In the tube labeled S" ] }, "subset": "XMglass", "target_candidate_matches": null, "target_step_id": "1", "target_step_text": "Label four sterile 0.2 mL PCR tubes as 1, 2, 3 and 4.", "task_type": "step_identification", "video_end": 8.5, "video_path": "videos640/XM_06.mp4", "video_start": 4.5, "view_role": "fpv" }, { "candidate_step": null, "clip_id": "DJI_41", "eval_id": "monstep_0248", "operation": "Virus_collecting(3rd-person view)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"15 ml centrifuge tube\",\"6 ml syringe\",\"0.45 um filter Syringe filter\",\"1.5 mL microcentrifuge tubes\",\"pipette\",\"TC hood Biosafety cabinet\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.\",\"reagents\":[\"viral supernatant Collected from producer cells\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Virus Collecting and Filtering", "state": { "equipment": [ "15 ml centrifuge tube", "6 ml syringe", "0.45 um filter Syringe filter", "1.5 mL microcentrifuge tubes", "pipette", "TC hood Biosafety cabinet" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Prepare 15 ml centrifuge tube, 6 ml syringe and 0.45 um filter.", "order": 1, "step": "1" }, { "desc": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "order": 2, "step": "2" }, { "desc": "Dispense the filtered viral solution into 1.5 mL microcentrifuge tubes.", "order": 3, "step": "3" } ], "protocol_summary": "This procedure involves collecting viral supernatant from producer cells, filtering it through a 0.45 µm syringe filter to remove debris, and aliquoting the filtered solution into microcentrifuge tubes.", "reagents": [ "viral supernatant Collected from producer cells" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Carefully collect the viral supernatant from the producer cells and pass it through the 0.45 µm syringe filter into the 15 mL centrifuge tube to remove cell debris.", "task_type": "step_identification", "video_end": 40.5, "video_path": "videos640/DJI_41.mp4", "video_start": 14.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_15", "eval_id": "monstep_0249", "operation": "CRISPR Delivery (w/ issue)", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"1.5 mL EP tube Intended for mixing reagents.\",\"10 cm dish Contains 293T cells at 70-80% confluency.\",\"pipette Adjustable volume pipette used for reagent transfer.\",\"pipette tips\",\"tube rack\"],\"history\":[],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add reagent 1 into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add reagent 2 into the EP tube.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add reagent 3 into the EP tube.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Mix well.\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"}],\"protocol_summary\":\"A procedure for delivering CRISPR-Cas9 components into 293T cells by mixing reagents in an EP tube before adding the mixture to the cell culture dish.\",\"reagents\":[\"reagent 1 Likely a CRISPR component such as Cas9 or gRNA.\",\"reagent 2\",\"reagent 3\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Cas9 Delivery", "state": { "equipment": [ "1.5 mL EP tube Intended for mixing reagents.", "10 cm dish Contains 293T cells at 70-80% confluency.", "pipette Adjustable volume pipette used for reagent transfer.", "pipette tips", "tube rack" ], "history": [], "objects": {}, "on": "1", "protocol": [ { "desc": "Add reagent 1 into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add reagent 2 into the EP tube.", "order": 2, "step": "2" }, { "desc": "Add reagent 3 into the EP tube.", "order": 3, "step": "3" }, { "desc": "Mix well.", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" } ], "protocol_summary": "A procedure for delivering CRISPR-Cas9 components into 293T cells by mixing reagents in an EP tube before adding the mixture to the cell culture dish.", "reagents": [ "reagent 1 Likely a CRISPR component such as Cas9 or gRNA.", "reagent 2", "reagent 3" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add reagent 2 into the EP tube.", "task_type": "step_identification", "video_end": 22.5, "video_path": "videos640/DJI_15.mp4", "video_start": 16.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_01", "eval_id": "monstep_0250", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile\"],\"history\":[{\"step\":\"1\",\"tas\":13,\"tds\":13},{\"step\":\"2\",\"tas\":38,\"tds\":10},{\"step\":\"3\",\"tas\":49,\"tds\":8},{\"step\":\"4\",\"tas\":64,\"tds\":7},{\"step\":\"6\",\"tas\":147,\"tds\":21}],\"objects\":{},\"on\":\"6\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a DNA-PEI complex in Opti-MEM followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery via PEI Transfection", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile" ], "history": [ { "step": "1", "tas": 13, "tds": 13 }, { "step": "2", "tas": 38, "tds": 10 }, { "step": "3", "tas": 49, "tds": 8 }, { "step": "4", "tas": 64, "tds": 7 }, { "step": "6", "tas": 147, "tds": 21 } ], "objects": {}, "on": "6", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a DNA-PEI complex in Opti-MEM followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "7", "target_step_text": "Gently rock the dish forward and backward to mix.", "task_type": "step_identification", "video_end": 171.5, "video_path": "videos640/DJI_01.mp4", "video_start": 148.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_15_LF", "eval_id": "monstep_0251", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":12,\"tds\":12}],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Collect 1st 750uL of trypsin\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Dispense into flask without touching any solid or liquid objects\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Collect 2nd 750uL of trypsin\",\"order\":4,\"step\":\"4\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 12, "tds": 12 } ], "objects": {}, "on": "2", "protocol": [ { "desc": "Grab 1000uL pipet and set to 750uL before attaching 1000uL pipet tip", "order": 1, "step": "1" }, { "desc": "Collect 1st 750uL of trypsin", "order": 2, "step": "2" }, { "desc": "Dispense into flask without touching any solid or liquid objects", "order": 3, "step": "3" }, { "desc": "Collect 2nd 750uL of trypsin", "order": 4, "step": "4" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Dispense into flask without touching any solid or liquid objects", "task_type": "step_identification", "video_end": 27.5, "video_path": "videos640/MV_01_15_LF.mp4", "video_start": 22.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_28", "eval_id": "monstep_0252", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"PCR tube 0.2 mL sterile tube\",\"pipette\",\"ice box green container with ice\",\"microcentrifuge used for quick spin\",\"thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[{\"step\":\"2\",\"tas\":46,\"tds\":46},{\"step\":\"7\",\"tas\":62,\"tds\":16},{\"step\":\"8\",\"tas\":69,\"tds\":7}],\"objects\":{},\"on\":\"9\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL) stock\",\"Reverse Primer (1 μL) stock\",\"template DNA (2 μL)\",\"nuclease-free water (8.5 μL) to reach final volume of 25 μL\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "PCR tube 0.2 mL sterile tube", "pipette", "ice box green container with ice", "microcentrifuge used for quick spin", "thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [ { "step": "2", "tas": 46, "tds": 46 }, { "step": "7", "tas": 62, "tds": 16 }, { "step": "8", "tas": 69, "tds": 7 } ], "objects": {}, "on": "9", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL) stock", "Reverse Primer (1 μL) stock", "template DNA (2 μL)", "nuclease-free water (8.5 μL) to reach final volume of 25 μL" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "10", "target_step_text": "Start the program.", "task_type": "step_identification", "video_end": 78.412, "video_path": "videos640/DJI_28.mp4", "video_start": 72.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "DJI_01", "eval_id": "monstep_0253", "operation": "CRISPR Delivery", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"BrandTech Transferpette\",\"10 cm petri dish Contains 293T cells\",\"1.5 mL EP tube Sterile\"],\"history\":[{\"step\":\"1\",\"tas\":13,\"tds\":13}],\"objects\":{},\"on\":\"1\",\"protocol\":[{\"desc\":\"Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"Add Cas9 plasmid.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add guide RNA plasmid.\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add PEI (4:1 ratio to DNA).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Incubate at room temperature for 20 min.\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Gently rock the dish forward and backward to mix.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the dish back into the cell incubator (37°C, 5% CO₂).\",\"order\":8,\"step\":\"8\"}],\"protocol_summary\":\"Preparation of a DNA-PEI complex in Opti-MEM followed by dropwise addition to 293T cells in a 10 cm dish.\",\"reagents\":[\"Opti-MEM (1 mL)\",\"Cas9 plasmid\",\"guide RNA plasmid\",\"PEI 4:1 ratio to DNA\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "CRISPR Delivery via PEI Transfection", "state": { "equipment": [ "BrandTech Transferpette", "10 cm petri dish Contains 293T cells", "1.5 mL EP tube Sterile" ], "history": [ { "step": "1", "tas": 13, "tds": 13 } ], "objects": {}, "on": "1", "protocol": [ { "desc": "Add 1 mL Opti-MEM into a sterile 1.5 mL EP tube.", "order": 1, "step": "1" }, { "desc": "Add Cas9 plasmid.", "order": 2, "step": "2" }, { "desc": "Add guide RNA plasmid.", "order": 3, "step": "3" }, { "desc": "Add PEI (4:1 ratio to DNA).", "order": 4, "step": "4" }, { "desc": "Incubate at room temperature for 20 min.", "order": 5, "step": "5" }, { "desc": "Add the mixture dropwise into a 10 cm dish of 293T cells (~70-80% confluency).", "order": 6, "step": "6" }, { "desc": "Gently rock the dish forward and backward to mix.", "order": 7, "step": "7" }, { "desc": "Place the dish back into the cell incubator (37°C, 5% CO₂).", "order": 8, "step": "8" } ], "protocol_summary": "Preparation of a DNA-PEI complex in Opti-MEM followed by dropwise addition to 293T cells in a 10 cm dish.", "reagents": [ "Opti-MEM (1 mL)", "Cas9 plasmid", "guide RNA plasmid", "PEI 4:1 ratio to DNA" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "Add Cas9 plasmid.", "task_type": "step_identification", "video_end": 38.5, "video_path": "videos640/DJI_01.mp4", "video_start": 27.5, "view_role": "tpv" }, { "candidate_step": null, "clip_id": "MV_01_03_HD", "eval_id": "monstep_0254", "operation": "Cell Passaging", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[],\"history\":[{\"step\":\"1\",\"tas\":23,\"tds\":23},{\"step\":\"2\",\"tas\":29,\"tds\":6}],\"objects\":{},\"on\":\"3\",\"protocol\":[{\"desc\":\"Disinfect Hood surface using ethanol\",\"order\":1,\"step\":\"1\"},{\"desc\":\"place sterile 5mL pipette man pipet tip on vent in front of hood\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Grab cell media, trypsin, and lypan blue (reagents)\",\"order\":3,\"step\":\"3\"}],\"protocol_summary\":\"Cell passaging.\",\"reagents\":[]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "Cell Passaging", "state": { "equipment": [], "history": [ { "step": "1", "tas": 23, "tds": 23 }, { "step": "2", "tas": 29, "tds": 6 } ], "objects": {}, "on": "3", "protocol": [ { "desc": "Disinfect Hood surface using ethanol", "order": 1, "step": "1" }, { "desc": "place sterile 5mL pipette man pipet tip on vent in front of hood", "order": 2, "step": "2" }, { "desc": "Grab cell media, trypsin, and lypan blue (reagents)", "order": 3, "step": "3" } ], "protocol_summary": "Cell passaging.", "reagents": [] }, "subset": "Multiview", "target_candidate_matches": null, "target_step_id": "3", "target_step_text": "Grab cell media, trypsin, and lypan blue (reagents)", "task_type": "step_identification", "video_end": 78.5, "video_path": "videos640/MV_01_03_HD.mp4", "video_start": 33.5, "view_role": "multiview" }, { "candidate_step": null, "clip_id": "DJI_27", "eval_id": "monstep_0255", "operation": "PCR Reaction Setup", "prompt": "You are a real-time lab assistant monitoring a scientist's wet-lab procedure from short video windows.\n\nThe current protocol state/history is provided below. Watch the current window and update the state.\n\nReport protocol errors only when supported by the visible time window or state.\n\nIgnore irrelevant unknown keys in the state JSON.\n\nCompare the protocol order, prior history, and watched window.\n\nIdentify the main protocol step being performed in this watched video window.\n\nSTATE:\n{\"equipment\":[\"Pipette Adjustable volume micropipette\",\"Pipette tips Disposable plastic tips\",\"PCR tubes 0.2 mL sterile tubes\",\"Ice bucket Green container with ice for reagent stability\",\"Microcentrifuge Small benchtop centrifuge for quick spins\",\"Thermocycler Bio-Rad T100 Thermal Cycler\"],\"history\":[],\"objects\":{},\"on\":\"2\",\"protocol\":[{\"desc\":\"Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.\",\"order\":1,\"step\":\"1\"},{\"desc\":\"In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.\",\"order\":2,\"step\":\"2\"},{\"desc\":\"Add 1 μL of Forward Primer (10 μM stock).\",\"order\":3,\"step\":\"3\"},{\"desc\":\"Add 1 μL of Reverse Primer (10 μM stock).\",\"order\":4,\"step\":\"4\"},{\"desc\":\"Add 2 μL of template DNA (concentration approx. 20 ng/μL).\",\"order\":5,\"step\":\"5\"},{\"desc\":\"Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.\",\"order\":6,\"step\":\"6\"},{\"desc\":\"Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.\",\"order\":7,\"step\":\"7\"},{\"desc\":\"Place the tube into the thermocycler.\",\"order\":8,\"step\":\"8\"},{\"desc\":\"Program the cycler or load pre-configured program:\",\"order\":9,\"step\":\"9\"},{\"desc\":\"o Initial denaturation at 95°C for 3 minutes\",\"order\":10,\"step\":\"9.1\"},{\"desc\":\"o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min\",\"order\":11,\"step\":\"9.2\"},{\"desc\":\"o Final extension at 72°C for 5 minutes\",\"order\":12,\"step\":\"9.3\"},{\"desc\":\"Start the program.\",\"order\":13,\"step\":\"10\"}],\"protocol_summary\":\"Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.\",\"reagents\":[\"2x Master Mix (12.5 μL)\",\"Forward Primer (1 μL)\",\"Reverse Primer (1 μL)\",\"Template DNA (2 μL)\",\"Nuclease-free water (8.5 μL)\"]}\n\nReturn strict JSON only.\n\n## Response Format\n{\n \"explanation\": \"string\",\n \"observed_step_id\": \"string or null\"\n}\n\n## Question\nWhich protocol step is being performed in this video window?", "protocol_title": "PCR Reaction Setup", "state": { "equipment": [ "Pipette Adjustable volume micropipette", "Pipette tips Disposable plastic tips", "PCR tubes 0.2 mL sterile tubes", "Ice bucket Green container with ice for reagent stability", "Microcentrifuge Small benchtop centrifuge for quick spins", "Thermocycler Bio-Rad T100 Thermal Cycler" ], "history": [], "objects": {}, "on": "2", "protocol": [ { "desc": "Thaw all reagents (Master Mix, primers, DNA template, nuclease-free water) and keep them on ice.", "order": 1, "step": "1" }, { "desc": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "order": 2, "step": "2" }, { "desc": "Add 1 μL of Forward Primer (10 μM stock).", "order": 3, "step": "3" }, { "desc": "Add 1 μL of Reverse Primer (10 μM stock).", "order": 4, "step": "4" }, { "desc": "Add 2 μL of template DNA (concentration approx. 20 ng/μL).", "order": 5, "step": "5" }, { "desc": "Add 8.5 μL of nuclease-free water to reach a final volume of 25 μL.", "order": 6, "step": "6" }, { "desc": "Mix contents by gently flicking the tube, then perform a quick spin in a microcentrifuge to collect the liquid at the bottom.", "order": 7, "step": "7" }, { "desc": "Place the tube into the thermocycler.", "order": 8, "step": "8" }, { "desc": "Program the cycler or load pre-configured program:", "order": 9, "step": "9" }, { "desc": "o Initial denaturation at 95°C for 3 minutes", "order": 10, "step": "9.1" }, { "desc": "o 30 cycles of: 95°C for 30 sec, 55°C for 30 sec, 72°C for 1 min", "order": 11, "step": "9.2" }, { "desc": "o Final extension at 72°C for 5 minutes", "order": 12, "step": "9.3" }, { "desc": "Start the program.", "order": 13, "step": "10" } ], "protocol_summary": "Preparation of a PCR reaction by mixing Master Mix, primers, DNA template, and water, followed by thermal cycling.", "reagents": [ "2x Master Mix (12.5 μL)", "Forward Primer (1 μL)", "Reverse Primer (1 μL)", "Template DNA (2 μL)", "Nuclease-free water (8.5 μL)" ] }, "subset": "DJI", "target_candidate_matches": null, "target_step_id": "2", "target_step_text": "In a sterile 0.2 mL PCR tube, add 12.5 μL of 2x Master Mix.", "task_type": "step_identification", "video_end": 46.5, "video_path": "videos640/DJI_27.mp4", "video_start": 1.5, "view_role": "tpv" } ], "max_window_s": 45.0, "max_windows": 255, "num_examples": 255, "pad_s": 0.5, "schema_version": 1, "seed": 20260620, "source_manifest": "not_included_public_package", "source_table": "data/clips.parquet", "task": "lsv_monitoring_candidate_step_match", "task_type": "step_identification", "use_640": true, "video_root": "." }