Comparative Assessment of Alignment Algorithms for NGS Data: Features, Considerations, Implementations, and Future. - Carol Shen; Tony Shen; Jimmy Lin (Algorithms for Next-Generation Sequencing Data, 2017)

TacoGFN: Target Conditioned GFlowNet for Structure-Based Drug Design. - Tony Shen; Mohit Pandey; Jason R. Smith 003; Artem Cherkasov; Martin Ester (CoRR, 2023)

Geometric-informed GFlowNets for Structure-Based Drug Design. - Grayson Lee; Tony Shen; Martin Ester (CoRR, 2024)

TacoGFN: Target-conditioned GFlowNet for Structure-based Drug Design. - Tony Shen; Seonghwan Seo; Grayson Lee; Mohit Pandey; Jason R. Smith 003; Artem Cherkasov; Woo Youn Kim; Martin Ester (Trans. Mach. Learn. Res., 2024)

Generative Flows on Synthetic Pathway for Drug Design. - Seonghwan Seo; Minsu Kim 004; Tony Shen; Martin Ester; Jinkyoo Park; Sungsoo Ahn; Woo Youn Kim (ICLR, 2025)

Compositional Flows for 3D Molecule and Synthesis Pathway Co-design. - Tony Shen; Seonghwan Seo; Ross Irwin; Kieran Didi; Simon Olsson; Woo Youn Kim; Martin Ester (CoRR, 2025)