Datasets agents

Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science

scPerturb: A resource and a python/R tool for single-cell perturbation data

Cell Painting Gallery

A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.

An All-in-One Platform for Biomedical Data Integration and Knowledge Graph Generation

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Genome-wide Perturb-seq datasets produced on a scalable fix-cryopreserve platform, released to train dose-dependent biological foundation models. Data on figshare (CC BY 4.0); no official GitHub repo.

Curated release of the RxRx3 high-content microscopy corpus: cell-painting images across compound treatments for benchmarking drug-target and mechanism-of-action inference. Dataset hosted on rxrx.ai; no official GitHub repo.

An atlas of ~100 million single-cell transcriptomes profiling 50 cancer cell lines across ~1,100 drug-dose treatments, pairing single-cell with molecular phenotypes to link drug mechanisms to cellular responses — an openly available substrate for training predictive models of cell behavior. Data lives on Hugging Face (CC0); no official GitHub repo.