Journal
NATURE STRUCTURAL & MOLECULAR BIOLOGY
Volume 18, Issue 8, Pages 956-U124Publisher
NATURE PUBLISHING GROUP
DOI: 10.1038/nsmb.2085
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Funding
- Institut National de la Sante et de la Recherche Medicale
- Centre National de la Recherche Scientifique (CNRS)
- Fondation Princesse Grace de Monaco
- Agence Nationale de la Recherche (ANR)
- Institut National du Cancer (INCa)
- Commission of the European Communities
- Chromatin Plasticity
- Marie Curie Research Training Network
- Association pour la Recherche sur le Cancer
- Genopole
- Fondation pour la Recherche Medicale
- Deutsche Forschungsgemeinschaft
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Recent work has shown that RNA polymerase (Pol) II can be recruited to and transcribe distal regulatory regions. Here we analyzed transcription initiation and elongation through genome-wide localization of Pol II, general transcription factors (GTFs) and active chromatin in developing T cells. We show that Pol II and GTFs are recruited to known T cell-specific enhancers. We extend this observation to many new putative enhancers, a majority of which can be transcribed with or without polyadenylation. Importantly, we also identify genomic features called transcriptional initiation platforms (TIPs) that are characterized by large areas of Pol II and GTF recruitment at promoters, intergenic and intragenic regions. TIPs show variable widths (0.4-10 kb) and correlate with high CpG content and increased tissue specificity at promoters. Finally, we also report differential recruitment of TFIID and other GTFs at promoters and enhancers. Overall, we propose that TIPs represent important new regulatory hallmarks of the genome.
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