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Arxiv|November 26, 2025
Entangled Schrödinger Bridge MatchingSophia Tang, Yinuo Zhang, Pranam ChatterjeeArxiv|January 7, 2025
PepTune: <i>De Novo</i> Generation of Therapeutic Peptides with Multi-Objective-Guided Discrete DiffusionSophia Tang, Yinuo Zhang, Pranam ChatterjeeArxiv|March 13, 2026
Branched Schrödinger Bridge MatchingSophia Tang, Yinuo Zhang, Alexander Tong, et al.Arxiv|April 1, 2025
Gumbel-Softmax Flow Matching with Straight-Through Guidance for Controllable Biological Sequence GenerationSophia Tang, Yinuo Zhang, Alexander Tong, et al.Biorxiv : the Preprint Server for Biology|January 8, 2026
PeptiVerse: A Unified Platform for Therapeutic Peptide Property PredictionYinuo Zhang, Sophia Tang, Tong Chen, et al.Biorxiv : the Preprint Server for Biology|August 12, 2024
moPPIt: <i>De Novo</i> Generation of Motif-Specific Binders with Protein Language ModelsTong Chen, Yinuo Zhang, Pranam ChatterjeeArxiv|November 19, 2025
TR2-D2: Tree Search Guided Trajectory-Aware Fine-Tuning for Discrete DiffusionSophia Tang, Yuchen Zhu, Molei Tao, et al.Molecular Cell|August 6, 2021
BARBEKO'ing in the lab: Versatile CRISPR screens with barcoded base editorsPranam ChatterjeeBiorxiv : the Preprint Server for Biology|March 11, 2024
PTM-Mamba: A PTM-Aware Protein Language Model with Bidirectional Gated Mamba BlocksZhangzhi Peng, Benjamin Schussheim, Pranam ChatterjeeBiochemistry|April 10, 2026
AI-Designed Peptides as Tools for BiochemistryLauren Hong, Sophia Vincoff, Pranam ChatterjeePageof 14