Understanding Transcriptional Regulatory Redundancy by Learnable Global Subset Perturbations. - Junhao Liu 001; Siwei Xu; Dylan Riffle; Ziheng Duan; Martin Renqiang Min; Jing Zhang 062 (ACML, 2024)

iMIRACLE: An Iterative Multi-View Graph Neural Network to Model Intercellular Gene Regulation From Spatial Transcriptomic Data. - Ziheng Duan; Siwei Xu; Cheyu Lee; Dylan Riffle; Jing Zhang 062 (CIKM, 2024)

OLAF: An Open Life Science Analysis Framework for Conversational Bioinformatics Powered by Large Language Models. - Dylan Riffle; Nima Shirooni; Cody He; Manush Murali; Sovit Nayak; Rishikumar Gopalan; Diego Gonzalez Lopez (CoRR, 2025)