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q-bio.QM2025
Greater than the Sum of Its Parts: Building Substructure into Protein Encoding Models
Robert Calef, Arthur Liang, Manolis Kellis +1
Protein representation learning has advanced rapidly with the scale-up of sequence and structure supervision, but most models still encode proteins either as per-residue token sequ…
q-bio.QM2024
ProteinRPN: Towards Accurate Protein Function Prediction with Graph-Based Region Proposals
Shania Mitra, Lei Huang, Manolis Kellis
Protein function prediction is a crucial task in bioinformatics, with significant implications for understanding biological processes and disease mechanisms. While the relationship…