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Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq

ABSTRACT: We report active promoters in five adult mouse tissues - brain, kidney, liver, lung and spleen using ChIP-Seq aganist RNAP-II antibody. We identified 38,639 active RNAP-II transcribed promoters, including 12,270 novel promoters. Of these, 6384 promoters are tissue specific which are CpG poor and contain multiple core promoter elements. By identifying the RNAP-II bound promoter(s) we found that 37% of the protein coding genes use alternative promoters in the five mouse tissues. Roughly 34% of the novel promoters are loacted in CpG-islands suggesting that novel promoters are mostly tissue specific. Study of active promoters in five adult mouse tissues

ORGANISM(S): Mus musculus

SUBMITTER: Ravi Gupta

PROVIDER: E-GEOD-21773 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq.

Sun Hao H Wu Jiejun J Wickramasinghe Priyankara P Pal Sharmistha S Gupta Ravi R Bhattacharyya Anirban A Agosto-Perez Francisco J FJ Showe Louise C LC Huang Tim H-M TH Davuluri Ramana V RV

Nucleic acids research 20100914 1

Alternative promoters that are differentially used in various cellular contexts and tissue types add to the transcriptional complexity in mammalian genome. Identification of alternative promoters and the annotation of their activity in different tissues is one of the major challenges in understanding the transcriptional regulation of the mammalian genes and their isoforms. To determine the use of alternative promoters in different tissues, we performed ChIP-seq experiments using antibody against ...[more]

PMID: 20843783

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