Empirical substitution models of protein evolution: database, relationships, and modeling considerations.

ABSTRACT: Substitution models of protein evolution describe the patterns of amino acid substitutions over evolutionary time and are fundamental for probabilistic methods of phylogenetic inference. At the protein level, a variety of substitution models are available, but only empirical substitution models are well established in phylogenetics due to their mathematical simplicity. Despite their importance, a database compiling the large number of currently available empirical substitution models of protein evolution is lacking, although such a resource could facilitate access, assessment, and subsequent implementation of these models into phylogenetic frameworks. Besides, little is known about formal comparisons between the current set of empirical substitution models. We present EModelDB, a database

SUBMITTER: Iglesias-Rivas P 

PROVIDER: S-EPMC12462380 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature