JunctionViewer: customizable annotation software for repeat-rich genomic regions. - Thomas K. Wolfgruber; Gernot G. Presting (BMC Bioinform., 2010)

Improved maize reference genome with single-molecule technologies. - Yinping Jiao; Paul Peluso; Jinghua Shi; Tiffany Y. Liang; Michelle C. Stitzer; Bo Wang 117; Michael Campbell; Joshua C. Stein; Xuehong Wei; Chen-Shan Chin; Katherine E. Guill; Michael Regulski; et al. (Nat., 2017)

GranatumX: A Community-engaging, Modularized, and Flexible Webtool for Single-cell Data Analysis. - David G. Garmire; Xun Zhu; Aravind Mantravadi; Qianhui Huang; Breck Yunits; Yu Liu 059; Thomas K. Wolfgruber; Olivier Poirion; Tianying Zhao; Cédric Arisdakessian; Stefan Stanojevic; Lana X. Garmire (Genom. Proteom. Bioinform., 2021)

Quantitative Imaging Principles Improves Medical Image Learning. - Lambert T. Leong; Michael C. Wong; Yannik Glaser; Thomas K. Wolfgruber; Steven B. Heymsfield; Peter Sadwoski; John A. Shepherd 002 (CoRR, 2022)

Learning a Clinically-Relevant Concept Bottleneck for Lesion Detection in Breast Ultrasound. - Arianna Bunnell; Yannik Glaser; Dustin Valdez; Thomas K. Wolfgruber; Aleen Altamirano; Carol Zamora González; Brenda Y. Hernandez; Peter Sadowski; John A. Shepherd 002 (MICCAI (3), 2024)

Deep Learning Predicts Mammographic Breast Density in Clinical Breast Ultrasound Images. - Arianna Bunnell; Dustin Valdez; Thomas K. Wolfgruber; Brandon Quon; Kailee Hung; Brenda Y. Hernandez; Todd B. Seto; Jeffrey Killeen; Marshall Miyoshi; Peter Sadowski; John A. Shepherd 002 (CoRR, 2024)

Deep Learning Enables Large-Scale Shape and Appearance Modeling in Total-Body DXA Imaging. - Arianna Bunnell; Devon Cataldi; Yannik Glaser; Thomas K. Wolfgruber; Steven B. Heymsfield; Alan B. Zonderman; Thomas L. Kelly; Peter Sadowski; John A. Shepherd 002 (CoRR, 2025)