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GEO RNA-seq Treatment Response Dataset
Pre-treatment RNA-seq studies with patient treatment response annotations, standardised to Entrez gene IDs and binary responder/non-responder labels.
Studies included (1 total, updated 2026-05-04)
- GSE91061 (bulk): | n=51 | advanced melanoma (unresectable or metastatic) | Nivolumab (anti-PD-1) 3 mg/kg IV every 2 weeks; CA209-038 clinical study (NCT01621490); cohort includes ipilimumab-naive (n=33) and ipilimumab-progressed (n=35) patients
Loading
from datasets import load_dataset, get_dataset_config_names
# List all studies
configs = get_dataset_config_names("Cgensbigler/geo-treatment-response")
# Load one study
ds = load_dataset("Cgensbigler/geo-treatment-response", name="gse91061_bulk_expression")
Schema
Each study config has two splits: *_expression (patients × Entrez gene IDs)
and *_metadata (patient clinical + response annotations).
Response column: response_binary (1=responder, 0=non-responder, -1=ambiguous).
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