AbstractMotivation. In phylogenomics, gene tree reconstruction depends on multiple sequence alignment and tree inference, and ongoing work continues to imp

Protein language models have excelled at modeling individual proteins, but extending these capabilities to protein complexes remains a major challenge. MSA Pairformer, a parameter-efficient protein la...

Folddisco enables protein structural motif search in million scale databases.

Foldseek clustered 820M AlphaFold DB + ESMatlas structures

Protein structure is conserved beyond sequence, making multiple structural alignment (MSTA) essential for analyzing distantly related proteins. Computational prediction methods have vastly extended ou...

Mirdita Lab builds scalable bioinformatics methods.

Abstract. Bacteriophage (phage) genome annotation is essential for understanding their functional potential and suitability for use as therapeutic agents.

Bacteriophage (phage) genome annotation is essential for understanding their functional potential and suitability for use as therapeutic agents. Here we introduce Phold, an annotation framework utilis...

Protein structure prediction breakthroughs, notably AlphaFold2 and ESMfold, have led to an unprecedented influx of computationally derived structures. The AlphaFold Protein Structure Database now prov...

Microbes are ubiquitous on Earth, forming microbiomes that sustain macroscopic life and biogeochemical cycles. Microbial dispersion, driven by natural processes and human activities, interconnects mic...

Pedro Beltrao’s team at ETH Zürich, created the first atlas of protein interactions in 11 human tissues. Mapping which proteins interact in which tissues will help uncover the specific functions of di...

RECOMB-seq is the RECOMB Satellite Conference on Biological Sequence Analysis