WILDS: A Benchmark of in-the-Wild Distribution Shifts. - Pang Wei Koh; Shiori Sagawa; Henrik Marklund; Sang Michael Xie; Marvin Zhang; Akshay Balsubramani; Weihua Hu; Michihiro Yasunaga; Richard Lanas Phillips; Irena Gao; Tony Lee; Etienne David; et al. (ICML, 2021)

MolE: a molecular foundation model for drug discovery. - Oscar Méndez-Lucio; Christos A. Nicolaou; Berton Earnshaw (CoRR, 2022)

RxRx1: A Dataset for Evaluating Experimental Batch Correction Methods. - Maciej Sypetkowski; Morteza Rezanejad; Saber Saberian; Oren Kraus; John Urbanik; James Taylor; Ben Mabey; Mason Victors; Jason Yosinski; Alborz Rezazadeh Sereshkeh; Imran S. Haque; Berton Earnshaw (CVPR Workshops, 2023)

Masked autoencoders are scalable learners of cellular morphology. - Oren Kraus; Kian Kenyon-Dean; Saber Saberian; Maryam Fallah; Peter McLean; Jess Leung; Vasudev Sharma; Ayla Khan; Jia Balakrishnan; Safiye Celik; Maciej Sypetkowski; Chi Vicky Cheng; et al. (CoRR, 2023)

Masked Autoencoders for Microscopy are Scalable Learners of Cellular Biology. - Oren Kraus; Kian Kenyon-Dean; Saber Saberian; Maryam Fallah; Peter McLean; Jess Leung; Vasudev Sharma; Ayla Khan; Jia Balakrishnan; Safiye Celik; Dominique Beaini; Maciej Sypetkowski; et al. (CVPR, 2024)

Automated Discovery of Pairwise Interactions from Unstructured Data. - Zuheng Xu; Moksh Jain; Ali Denton; Shawn Whitfield; Aniket Didolkar; Berton Earnshaw; Jason S. Hartford (CoRR, 2024)

Building, benchmarking, and exploring perturbative maps of transcriptional and morphological data. - Safiye Celik; Jan-Christian Hütter; Sandra Melo Carlos; Nathan H. Lazar; Rahul Mohan; Conor Tillinghast; Tommaso Biancalani; Marta M. Fay; Berton Earnshaw; Imran S. Haque (PLoS Comput. Biol., 2024)

Shaping Inductive Bias in Diffusion Models through Frequency-Based Noise Control. - Thomas Jiralerspong; Berton Earnshaw; Jason S. Hartford; Yoshua Bengio; Luca Scimeca (CoRR, 2025)

Virtual Cells: Predict, Explain, Discover. - Emmanuel Noutahi; Jason S. Hartford; Prudencio Tossou; Shawn Whitfield; Alisandra K. Denton; Cas Wognum; Kristina Ulicna; Michael Craig; Jonathan Hsu; Michael Cuccarese; Emmanuel Bengio; Dominique Beaini; et al. (CoRR, 2025)

TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction. - Frederik Wenkel; Wilson Tu; Cassandra Masschelein; Hamed Shirzad; Cian Eastwood; Shawn Whitfield; Ihab Bendidi; Craig Russell; Liam Hodgson; Yassir El Mesbahi; Jiarui Ding; Marta M. Fay; et al. (CoRR, 2025)