Differential contribution to gene expression prediction of histone modifications at enhancers or promoters.

ABSTRACT: The ChIP-seq signal of histone modifications at promoters is a good predictor of gene expression in different cellular contexts, but whether this is also true at enhancers is not clear. To address this issue, we develop quantitative models to characterize the relationship of gene expression with histone modifications at enhancers or promoters. We use embryonic stem cells (ESCs), which contain a full spectrum of active and repressed (poised) enhancers, to train predictive models. As many poised enhancers in ESCs switch towards an active state during differentiation, predictive models can also be trained on poised enhancers throughout differentiation and in development. Remarkably, we determine that histone modifications at enhancers, as well as promoters, are predictive of gene expression i

SUBMITTER: Gonzalez-Ramirez M 

PROVIDER: S-EPMC8443064 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature