75 citations · 142 across the 4 of their papers we have counts for
5 papers
DiffPaSS -- High-performance differentiable pairing of protein sequences using soft scores
Umberto Lupo, Damiano Sgarbossa, Martina Milighetti +1
Identifying interacting partners from two sets of protein sequences has important applications in computational biology. Interacting partners share similarities across species due…
Pairing interacting protein sequences using masked language modeling
Umberto Lupo, Damiano Sgarbossa, Anne-Florence Bitbol
Predicting which proteins interact together from amino-acid sequences is an important task. We develop a method to pair interacting protein sequences which leverages the power of p…
Impact of phylogeny on structural contact inference from protein sequence data
Nicola Dietler, Umberto Lupo, Anne-Florence Bitbol
Local and global inference methods have been developed to infer structural contacts from multiple sequence alignments of homologous proteins. They rely on correlations in amino-aci…
Generative power of a protein language model trained on multiple sequence alignments
Damiano Sgarbossa, Umberto Lupo, Anne-Florence Bitbol
Computational models starting from large ensembles of evolutionarily related protein sequences capture a representation of protein families and learn constraints associated to prot…
Protein language models trained on multiple sequence alignments learn phylogenetic relationships
Umberto Lupo, Damiano Sgarbossa, Anne-Florence Bitbol
Self-supervised neural language models with attention have recently been applied to biological sequence data, advancing structure, function and mutational effect prediction. Some p…