Sequence-Based Machine Learning Reveals 3D Genome Differences between Bonobos and Chimpanzees.

ABSTRACT: The 3D structure of the genome is an important mediator of gene expression. As phenotypic divergence is largely driven by gene regulatory variation, comparing genome 3D contacts across species can further understanding of the molecular basis of species differences. However, while experimental data on genome 3D contacts in humans are increasingly abundant, only a handful of 3D genome contact maps exist for other species. Here, we demonstrate that human experimental data can be used to close this data gap. We apply a machine learning model that predicts 3D genome contacts from DNA sequence to the genomes from 56 bonobos and chimpanzees and identify species-specific patterns of genome folding. We estimated 3D divergence between individuals from the resulting contact maps in 4,420 1 Mb genomic

SUBMITTER: Brand CM 

PROVIDER: S-EPMC11579661 | biostudies-literature | 2024 Nov

REPOSITORIES: biostudies-literature