NeMu: a comprehensive pipeline for accurate reconstruction of neutral mutation spectra from evolutionary data.

ABSTRACT: The recognized importance of mutational spectra in molecular evolution is yet to be fully exploited beyond human cancer studies and model organisms. The wealth of intraspecific polymorphism data in the GenBank repository, covering a broad spectrum of genes and species, presents an untapped opportunity for detailed mutational spectrum analysis. Existing methods fall short by ignoring intermediate substitutions on the inner branches of phylogenetic trees and lacking the capability for cross-species mutational comparisons. To address these challenges, we present the NeMu pipeline, available at https://nemu-pipeline.com, a tool grounded in phylogenetic principles designed to provide comprehensive and scalable analysis of mutational spectra. Utilizing extensive sequence data from numerous avail

SUBMITTER: Efimenko B 

PROVIDER: S-EPMC11223800 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature