Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. - Esther Rheinbay; Morten Muhlig Nielsen; Federico Abascal; Jeremiah Wala; Ofer Shapira; Grace Tiao; Henrik Hornshøj; Julian M. Hess; Randi Istrup Juul; Ziao Lin; Lars Feuerbach; Radhakrishnan Sabarinathan; et al. (Nat., 2020)

Inference of cell dynamics on perturbation data using adjoint sensitivity. - Weiqi Ji; Bo Yuan; Ciyue Shen; Aviv Regev; Chris Sander; Sili Deng (CoRR, 2021)

Interpretability analysis on a pathology foundation model reveals biologically relevant embeddings across modalities. - Nhat Le; Ciyue Shen; Chintan Shah; Blake Martin; Daniel Shenker; Harshith Padigela; Jennifer A. Hipp; Sean Grullon; John Abel; Harsha Pokkalla; Dinkar Juyal (CoRR, 2024)