Viime: Visualization and Integration of Metabolomics Experiments. - Roni Choudhury; Jonathan Beezley; Brandon Davis; Jared Tomeck; Samuel Gratzl; Lilian Golzarri-Arroyo; Jun Wan; Daniel Raftery; Jeffrey Baumes; Thomas O'Connell (J. Open Source Softw., 2020)

Leveraging Ontologies within the National Microbiome Data Collaborative. - William D. Duncan; Faiza Ahmed; Fnu Anubhav; Jeffrey Baumes; Jonathan Beezley; Mark Borkum; Lisa M. Bramer; Shane Canon; Patrick S. G. Chain; Danielle Christianson; Yuri Corilo; Karen Davenport; et al. (ICBO, 2021)

A modular computational framework for medical digital twins. - Joseph Masison; Jonathan Beezley; Yu Mei; Henrique Assis Lopes Ribeiro; Adam C. Knapp; Luis Sordo Vieira; Bandita Adhikari; Yogesh Scindia; Michael Grauer; Brian Helba; William Schroeder; Borna Mehrad; et al. (Proc. Natl. Acad. Sci. USA, 2021)