CSER and eMERGE: current and potential state of the display of genetic information in the electronic health record. - Brian H. Shirts; Joseph S. Salama; Samuel J. Aronson; Wendy K. Chung; Stacy W. Gray; Lucia A. Hindorff; Gail P. Jarvik; Sharon E. Plon; Elena M. Stoffel; Peter Tarczy-Hornoch; Eliezer M. Van Allen; Karen E. Weck; et al. (J. Am. Medical Informatics Assoc., 2015)

Clinical Informatics for Precision Cancer Medicine: Computational Methods for Interpreting Individual Whole Exome and Transcriptome Tumor Sequence Data. - Nathanael D. Moore; Brendan Reardon; Eliezer M. Van Allen (AMIA, 2017)

Interactive or static reports to guide clinical interpretation of cancer genomics. - Stacy W. Gray; Jeffrey Gagan; Ethan Cerami; Angel M. Cronin; Hajime Uno; Nelly Oliver; Carol Lowenstein; Ruth Lederman; Anna Revette; Aaron Suarez; Charlotte Lee; Jordan Bryan; et al. (J. Am. Medical Informatics Assoc., 2018)

Expanding Accessibility of a Molecular Oncology Almanac for Precision Cancer Medicine. - Nicholas S. Moore; Brendan Reardon; Eric Kofman; Nathanael D. Moore; Eliezer M. Van Allen (AMIA, 2019)

CoMut: visualizing integrated molecular information with comutation plots. - Jett Crowdis; Meng Xiao He; Brendan Reardon; Eliezer M. Van Allen (Bioinform., 2020)

Biologically informed deep neural network for prostate cancer discovery. - Haitham Elmarakeby; Justin Hwang; Rand Arafeh; Jett Crowdis; Sydney Gang; David Liu; Saud H. AlDubayan; Keyan Salari; Steven Kregel; Camden Richter; Taylor E. Arnoff; Jihye Park; et al. (Nat., 2021)

Empirical evaluation of language modeling to ascertain cancer outcomes from clinical text reports. - Haitham Elmarakeby; Pavel S. Trukhanov; Vidal M. Arroyo; Irbaz Bin Riaz; Deborah Schrag; Eliezer M. Van Allen; Kenneth L. Kehl (BMC Bioinform., 2023)

Fluoroformer: Scaling multiple instance learning to multiplexed images via attention-based channel fusion. - Marc Harary; Eliezer M. Van Allen; William Lotter (CoRR, 2024)

UniversalEPI: a generalized attention-based deep ensemble model to accurately predict enhancer-promoter interactions across diverse cell types and conditions. - Aayush Grover; Lin Zhang 031; Till Muser; Simeon Haefliger; Minjia Wang; Josephine Yates; Eliezer M. Van Allen; Fabian J. Theis; Ignacio Ibarra; Ekaterina A. Krymova; Valentina Boeva (Zenodo, 2025)