3 papers
q-bio.BM2025
PLM-eXplain: Divide and Conquer the Protein Embedding Space
Jan van Eck, Dea Gogishvili, Wilson Silva +1
Protein language models (PLMs) have revolutionised computational biology through their ability to generate powerful sequence representations for diverse prediction tasks. However,…
q-bio.QM2024
PatchProt: Hydrophobic patch prediction using protein foundation models
Dea Gogishvili, Emmanuel Minois-Genin, Jan van Eck +1
Hydrophobic patches on protein surfaces play important functional roles in protein-protein and protein-ligand interactions. Large hydrophobic surfaces are also involved in the prog…
q-bio.BM2021
How sticky are our proteins? Quantifying hydrophobicity of the human proteome
Juami Hermine Mariama van Gils, Dea Gogishvili, Jan van Eck +3
Proteins tend to bury hydrophobic residues inside their core during the folding process to provide stability to the protein structure and to prevent aggregation. Nevertheless, prot…