Benchmark of software tools for prokaryotic chromosomal interaction domain identification.

ABSTRACT:

Motivation

The application of genome-wide chromosome conformation capture (3C) methods to prokaryotes provided insights into the spatial organization of their genomes and identified patterns conserved across the tree of life, such as chromatin compartments and contact domains. Prokaryotic genomes vary in GC content and the density of restriction sites along the chromosome, suggesting that these properties should be considered when planning experiments and choosing appropriate software for data processing. Diverse algorithms are available for the analysis of eukaryotic chromatin contact maps, but their potential application to prokaryotic data has not yet been evaluated.

Results

Here, we present a comparative analysis of domain calling algorithms using available single-microb

SUBMITTER: Magnitov MD 

PROVIDER: S-EPMC7653553 | biostudies-literature | 2020 Nov

REPOSITORIES: biostudies-literature