Statistical learning quantifies transposable element-mediated cis-regulation.

ABSTRACT:

Background

Transposable elements (TEs) have colonized the genomes of most metazoans, and many TE-embedded sequences function as cis-regulatory elements (CREs) for genes involved in a wide range of biological processes from early embryogenesis to innate immune responses. Because of their repetitive nature, TEs have the potential to form CRE platforms enabling the coordinated and genome-wide regulation of protein-coding genes by only a handful of trans-acting transcription factors (TFs).

Results

Here, we directly test this hypothesis through mathematical modeling and demonstrate that differences in expression at protein-coding genes alone are sufficient to estimate the magnitude and significance of TE-contributed cis-regulatory activities, even in contexts where TE-derived tra

SUBMITTER: Pulver C 

PROVIDER: S-EPMC10637000 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature