Yahui Ma

This paper decodes multi-state conformational heterogeneity from crystallographic B-factors using sequence context, introducing BFC to improve accuracy and utility in structural biology.

This paper shows that protein language models like ESM-2 encode evolutionary grammar rather than three-dimensional geometry, conflate topological and thermodynamic phases, and require explicit physical constraints for accurate modeling.

This paper explores using 2D spectrograms generated from amino acid sequences (sonification) for protein function prediction, showing improved performance over traditional methods.