Identification of novel functional TBP-binding sites and general factor repertoires.

Details

Serval ID
serval:BIB_8BFBE0960A8B
Type
Article: article from journal or magazin.
Collection
Publications
Title
Identification of novel functional TBP-binding sites and general factor repertoires.
Journal
EMBO Journal
Author(s)
Denissov S., van Driel M., Voit R., Hekkelman M., Hulsen T., Hernandez N., Grummt I., Wehrens R., Stunnenberg H.
ISSN
0261-4189[print], 0261-4189[linking]
Publication state
Published
Issued date
02/2007
Peer-reviewed
Oui
Volume
26
Number
4
Pages
944-954
Language
english
Abstract
Our current knowledge of the general factor requirement in transcription by the three mammalian RNA polymerases is based on a small number of model promoters. Here, we present a comprehensive chromatin immunoprecipitation (ChIP)-on-chip analysis for 28 transcription factors on a large set of known and novel TATA-binding protein (TBP)-binding sites experimentally identified via ChIP cloning. A large fraction of identified TBP-binding sites is located in introns or lacks a gene/mRNA annotation and is found to direct transcription. Integrated analysis of the ChIP-on-chip data and functional studies revealed that TAF12 hitherto regarded as RNA polymerase II (RNAP II)-specific was found to be also involved in RNAP I transcription. Distinct profiles for general transcription factors and TAF-containing complexes were uncovered for RNAP II promoters located in CpG and non-CpG islands suggesting distinct transcription initiation pathways. Our study broadens the spectrum of general transcription factor function and uncovers a plethora of novel, functional TBP-binding sites in the human genome.
Keywords
Binding Sites/genetics, Chromatin Immunoprecipitation/methods, CpG Islands/genetics, Gene Expression Regulation/genetics, Genome, Human/genetics, Humans, Microarray Analysis, Principal Component Analysis, RNA Polymerase I/metabolism, RNA Polymerase II/metabolism, Reverse Transcriptase Polymerase Chain Reaction, TATA-Binding Protein Associated Factors/genetics, TATA-Binding Protein Associated Factors/metabolism, TATA-Box Binding Protein/metabolism, Transcription Factors/genetics
Pubmed
Web of science
Open Access
Yes
Create date
21/01/2008 17:33
Last modification date
20/08/2019 15:50
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