Higher-order partial least squares for predicting gene expression levels from chromatin states.

ABSTRACT: BACKGROUND:Extensive studies have shown that gene expression levels are strongly affected by chromatin mark combinations via at least two mechanisms, i.e., activation or repression. But their combinatorial patterns are still unclear. To further understand the relationship between histone modifications and gene expression levels, here in this paper, we introduce a purely geometric higher-order representation, tensor (also called multidimensional array), which might borrow more unknown interactions in chromatin states to predicting gene expression levels. RESULTS:The prediction models were learned from regions around upstream 10k base pairs and downstream 10k base pairs of the transcriptional start sites (TSSs) on three species (i.e., Human, Rhesus Macaque, and Chimpanzee) with five histone

SUBMITTER: Sun S 

PROVIDER: S-EPMC5907142 | biostudies-literature | 2018 Apr

REPOSITORIES: biostudies-literature