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Keyword: sequence comparison ×Clear all

2 claims from 1 paper

1. Biochemistry, Genetics and Molecular Biology › Protein Structure and Dynamics

   Contrastive learning on protein embeddings enlightens midnight zone

   Heinzinger, Littmann, Sillitoe, Bordin, Orengo and Rost · NAR Genomics and Bioinformatics · 2022

   The authors trained protein language model embeddings with contrastive learning on CATH structural classes, creating ProtTucker, to detect distantly related proteins faster and with comparable or better performance than existing methods.

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   1. UncheckedProtTucker, a method using protein language model embeddings, is reported to spot distant evolutionary relatives better than threading or fold recognition.“The approach, dubbed ProtTucker, has an improved ability to recognize distant homologous relationships than more traditional techniques such as threading or fold recognition.”
   2. UncheckedThe authors say their embedding-based method is orders of magnitude faster than alignment-based methods because it does not need to generate alignments.“Additionally, since this method does not need to generate alignments it is also orders of magnitudes faster.”