Chem-PerturBridge: a harmonized compendium of small molecule perturbation transcriptomic effects
Large perturbation models require training data encompassing chemical, cellular, and assay diversity. Current transcriptomic resources for small-molecule modeling, however, are fragmented across technologies, metadata conventions, controls, doses, and preprocessing pipelines. We introduce Chem-PerturBridge, a harmonized multi-dataset resource comprising over 37k compounds, 136 cellular contexts, and 1.25M transcriptomic samples across eight assay types, with standardized identifiers, metadata, and replicate-aware condition-level effects. We use the resource to evaluate matched-condition agreement across datasets and replicate agreement within datasets. Matched same-compound conditions gen...
| Authors | Artur Szałata, Olga Novitskaia, Maiia Shulman et al. |
|---|---|
| Primary category | cs.LG |
| Published | 29 May 2026 |
| Last updated at source | 29 May 2026 |
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