2 papers
q-bio.BM2025
Two for the Price of One: Integrating Large Language Models to Learn Biophysical Interactions
Joseph D. Clark, Tanner J. Dean, Diwakar Shukla
Deep learning models have become fundamental tools in drug design. In particular, large language models trained on biochemical sequences learn feature vectors that guide drug disco…
q-bio.QM2024
Substrate Prediction for RiPP Biosynthetic Enzymes via Masked Language Modeling and Transfer Learning
Joseph D. Clark, Xuenan Mi, Douglas A. Mitchell +1
Ribosomally synthesized and post-translationally modified peptide (RiPP) biosynthetic enzymes often exhibit promiscuous substrate preferences that cannot be reduced to simple rules…