Zhangyang Gao

Lost in Tokenization: Context as the Key to Unlocking Biomolecular Understanding in Scientific LLMs

Protein-SE(3): Unified Framework and Comprehensive Benchmark for SE(3)-based Protein Structure Design

A Unified Perspective and Review on Tree Search for LLMs Test-Time Scaling

PFMBench: Protein Foundation Model Benchmark

AlphaFold Database Debiasing for Robust Inverse Folding

ProtInvTree: Deliberate Protein Inverse Folding with Reward-guided Tree Search

ReNovo: Retrieval-Based De Novo Mass Spectrometry Peptide Sequencing

EVA: Geometric Inverse Design for Fast Protein Motif-Scaffolding with Coupled Flow

MeToken: Uniform Micro-environment Token Boosts Post-Translational Modification Prediction

Peer Review as A Multi-Turn and Long-Context Dialogue with Role-Based Interactions: Benchmarking Large Language Models