3 papers
cs.LG2026
RXNRECer Enables Fine-grained Enzymatic Function Annotation through Active Learning and Protein Language Models
Zhenkun Shi, Jun Zhu, Dehang Wang +7
A key challenge in enzyme annotation is identifying the biochemical reactions catalyzed by proteins. Most existing methods rely on Enzyme Commission (EC) numbers as intermediaries:…
cs.LG2024
Training Compute-Optimal Protein Language Models
Xingyi Cheng, Bo Chen, Pan Li +3
We explore optimally training protein language models, an area of significant interest in biological research where guidance on best practices is limited. Most models are trained w…
q-bio.BM2024
MSAGPT: Neural Prompting Protein Structure Prediction via MSA Generative Pre-Training
Bo Chen, Zhilei Bei, Xingyi Cheng +3
Multiple Sequence Alignment (MSA) plays a pivotal role in unveiling the evolutionary trajectories of protein families. The accuracy of protein structure predictions is often compro…