SNPraefentia: a toolkit to prioritize microbial genome variants linked to health and disease.

ABSTRACT:

Motivation

Analysis of genomic variation in microbial genomes is crucial for understanding how microbes adapt, interact with their hosts, and influence health and disease. In metagenomic studies, where genetic material from entire microbial communities is sequenced, thousands of single-nucleotide polymorphisms can be detected across species and samples. However, identifying which of these variations has biologically or functionally relevant impacts remains a significant challenge.

Results

To address this, we present SNPraefentia, a Python-based toolkit for prioritizing microbial SNPs based on their predicted functional relevance. The tool integrates multiple biologically meaningful parameters, including sequencing depth, physicochemical impact of amino acid substitutions, an

SUBMITTER: Khan N 

PROVIDER: S-EPMC12671963 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature