Integrative modeling of lncRNA-chromatin interaction maps reveals diverse mechanisms of nuclear retention.

ABSTRACT:

Background

Many long non-coding RNAs, known to be involved in transcriptional regulation, are enriched in the nucleus and interact with chromatin. However, their mechanisms of chromatin interaction and the served cellular functions are poorly understood. We sought to characterize the mechanisms of lncRNA nuclear retention by systematically mapping the sequence and chromatin features that distinguish lncRNA-interacting genomic segments.

Results

We found DNA 5-mer frequencies to be predictive of chromatin interactions for all lncRNAs, suggesting sequence-specificity as a global theme in the interactome. Sequence features representing protein-DNA and protein-RNA binding motifs revealed potential mechanisms for specific lncRNAs. Complementary to these global themes, transcriptio

SUBMITTER: Tabe-Bordbar S 

PROVIDER: S-EPMC10347723 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature