SCLD: a stem cell lineage database for the annotation of cell types and developmental lineages. - Edward Hemphill; Asav P. Dharia; Chih Lee; Caroline M. Jakuba; Jason D. Gibson; Frederick W. Kolling IV; Craig E. Nelson (Nucleic Acids Res., 2011)

Graph Neural Networks Ameliorate Potential Impacts of Imprecise Large-Scale Autonomous Immunofluorescence Labeling of Immune Cells on Whole Slide Images. - Ramya Reddy; Ram Reddy; Cyril Sharma; Christopher R. Jackson; Scott Palisoul; Rachael Barney; Fred Kolling; Lucas A. Salas; Brock C. Christensen; Gabriel Brooks; Gregory J. Tsongalis; Louis J. Vaickus; et al. (GeoMedIA, 2022)

Mapping Three-Dimensional Tumor Heterogeneity through Deep Learning Inference of Spatial Transcriptomics from Routine Histopathology: A Proof-of-Concept Comparative Study. - Zarif L. Azher; Gokul Srinivasan; Keluo Yao; Minh-Khang Le; Ken Lau; Harsimran Kaur; Fred Kolling; Louis J. Vaickus; Xiaoying Lu; Joshua J. Levy (ML4H@NeurIPS, 2024)

An initial game-theoretic assessment of enhanced tissue preparation and imaging protocols for improved deep learning inference of spatial transcriptomics from tissue morphology. - Michael Y. Fatemi; Yunrui Lu; Alos B. Diallo; Gokul Srinivasan; Zarif L. Azher; Brock C. Christensen; Lucas A. Salas; Gregory J. Tsongalis; Scott Palisoul; Laurent Perreard; Frederick W. Kolling IV; Louis J. Vaickus; et al. (Briefings Bioinform., 2024)

Feasibility of Inferring Spatial Transcriptomics from Single-Cell Histological Patterns for Studying Colon Cancer Tumor Heterogeneity. - Michael Y. Fatemi; Yunrui Lu; Zarif L. Azher; Cyril Sharma; Eric Feng; Alos B. Diallo; Gokul Srinivasan; Grace M. Rosner; Kelli B. Pointer; Brock C. Christensen; Lucas A. Salas; Gregory J. Tsongalis; et al. (BIOSTEC (1), 2025)