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Series GSE9613 Query DataSets for GSE9613
Status Public on Jan 30, 2008
Title Cohesin mediates transcriptional insulation by CCCTC-binding factor
Organism Homo sapiens
Experiment type Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
Summary Chromosome segregation in mitosis and meiosis depends on sister chromatid cohesion mediated by cohesin complexes. Mutation of cohesin and other cohesion proteins causes transcriptional and developmental defects in animals and humans, but the molecular cause of these phenotypes is unknown. Here we describe 8811 cohesin binding sites in the human genome and show that the CCCTC-binding factor (CTCF) is associated with 88% of these. CTCF is dispensable for loading of cohesin onto DNA but is required for enrichment of cohesin at its binding sites. We provide evidence that cohesin is required for the role of CTCF sites in insulating promoters from distant enhancers. Like CTCF, cohesin is located on the maternal but not on the paternal allele of the H19 imprinting control region (ICR) and is required for imprinting of the H19-Igf2 locus. We find that cohesin is widely expressed in mammalian tissues, consistent with a cohesionindependent role in regulating gene expression. We propose that cohesin functions as a transcriptional insulator and speculate that subtle deficiencies in this function may be the cause of "cohesinopathies" such as Cornelia de Lange and Roberts syndrome.
Keywords: ChIP-chip analysis
 
Overall design This series contains two sets of whole genome ChIP-chip data, 16 sets of ENCODE array ChIP-chip data, and four sets of transcriptional analyses data, involving the cohesin subunits Scc1, Smc3, and SA2.
 
Contributor(s) Wendt KS, Yoshida K, Itoh T, Bando M, Koch B, Schirghuber E, Maeshima K, Aburatani H, Shirahige K, Peters J
Citation(s) 18235444
Submission date Nov 15, 2007
Last update date Mar 25, 2019
Contact name Katsuhiko Shirahige
E-mail(s) kshirahi@iam.u-tokyo.ac.jp
Phone +81-3-5842-0756
Fax +81-3-5842-0757
URL http://www.iam.u-tokyo.ac.jp/chromosomeinformatics/
Organization name The University of Tokyo
Department Research Center for Epigenetic Disease
Lab Laboratory of Genome Structure and Function
Street address 1-1-1 Yayoi
City Bunkyo-ku
State/province Tokyo
ZIP/Postal code 113-0032
Country Japan
 
Platforms (17)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
GPL6129 GeneChip ENCODEver2.0R Array - NCBI build 36
GPL6130 GeneChip ENCODE01 1.0 Array - NCBI build 36
Samples (50)
GSM243190 hScc1 localization in G2 (Whole Genome #1)
GSM243191 hScc1 localization in G2 (Whole Genome #2)
GSM243192 hScc1 localization in G2 (Whole Genome #3)
Relations
BioProject PRJNA103467

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE9613_RAW.tar 4.3 Gb (http)(custom) TAR (of CEL)
Processed data included within Sample table
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