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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 (2 total, updated 2026-04-16)
- GSE78220 (bulk): | n=25 | Metastatic Melanoma | Pembrolizumab (anti-PD-1 checkpoint inhibitor)
- GSE126044 (bulk): | n=16 | Non-small cell lung cancer (NSCLC) | Anti-PD-1 therapy (nivolumab or pembrolizumab)
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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