Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2014-12

AUTHORS

Leighton J Core, André L Martins, Charles G Danko, Colin T Waters, Adam Siepel, John T Lis

ABSTRACT

Despite the conventional distinction between them, promoters and enhancers share many features in mammals, including divergent transcription and similar modes of transcription factor binding. Here we examine the architecture of transcription initiation through comprehensive mapping of transcription start sites (TSSs) in human lymphoblastoid B cell (GM12878) and chronic myelogenous leukemic (K562) ENCODE Tier 1 cell lines. Using a nuclear run-on protocol called GRO-cap, which captures TSSs for both stable and unstable transcripts, we conduct detailed comparisons of thousands of promoters and enhancers in human cells. These analyses identify a common architecture of initiation, including tightly spaced (110 bp apart) divergent initiation, similar frequencies of core promoter sequence elements, highly positioned flanking nucleosomes and two modes of transcription factor binding. Post-initiation transcript stability provides a more fundamental distinction between promoters and enhancers than patterns of histone modification and association of transcription factors or co-activators. These results support a unified model of transcription initiation at promoters and enhancers. More... »

PAGES

1311-1320

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  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/ng.3142

    DOI

    http://dx.doi.org/10.1038/ng.3142

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1029090833

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/25383968


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