GenomeDecoder: inferring segmental duplications in highly repetitive genomic regions.

ABSTRACT:

Motivation

The emergence of the 'telomere-to-telomere' genomics brought the challenge of identifying segmental duplications (SDs) in complete genomes. It further opened a possibility for identifying the differences in SDs across individual human genomes and studying the SD evolution. These newly emerged challenges require algorithms for reconstructing SDs in the most complex genomic regions that evaded all previous attempts to analyze their architecture, such as rapidly evolving immunoglobulin loci.

Results

We describe the GenomeDecoder algorithm for inferring SDs and apply it to analyzing genomic architectures of various loci in primate genomes. Our analysis revealed that multiple duplications/deletions led to a rapid birth/death of immunoglobulin genes within the human pop

SUBMITTER: Zhang Z 

PROVIDER: S-EPMC11842051 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature