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Series GSE9069 Query DataSets for GSE9069
Status Public on Nov 01, 2007
Title Genome-wide location map of Polycomb in prostate cancer
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary We used chromatin immunoprecipitation (ChIP) in combination with human promoter microarrays to idnetify SUZ12 and H3K27me3-occupied gene promoters in prostate cancer cells and tissues. We observed a common set of SUZ12 and H3K27me3-occupied genes in LNCaP cells, and metastatic prostate cancer tissues across individuals as well as tissue types of the metastatic sites. We also found significant overlap of cancer polycomb targets with previously published embryonic stem cell polycomb targets. In addition, a strong association between cancer polycomb targets with prostate cancer outcome was observed. We developed a cancer Polycomb Repression Signature, comprised direct targets of PRC2 silencing in cancer, that is predictive of cancer outcome in multiple expression profling datasets of tumors.
Keywords: protein-DNA interaction
 
Overall design SUZ12 and H3K27me3 occupancy were tested in LNCaP cells as well as 3 metastatic prostate cancer tissues from independent patients. Using the proximal promoter arrays, we are assaying binding in -1.0kb to 0.3kb promoter regions of over 17,000 human genes. We first tested the co-ocupancy of SUZ12 and H3K27me3 in LNCaP prostate cancer cell lines, then extended to 2 metastatic prostate cancer tissue (to the liver). We lastly examined H3K27me3 occupancy in another metastatic prostate cancer tissue from different metasatic site (to the lung) of an independent patient.
 
Contributor(s) Yu J, Chinnaiyan AM
Citation(s) 18006806
Submission date Sep 17, 2007
Last update date Mar 17, 2012
Contact name Jindan Yu
E-mail(s) jindan-yu@northwestern.edu
Organization name Northwestern University
Department Medicine - Hem/Onc
Lab Yu
Street address 303 E. Superior St.
City Chicago
State/province IL
ZIP/Postal code 60611
Country USA
 
Platforms (4)
GPL4089 Agilent-013902 Human Proximal Promoter ChIP-on-Chip Set, Microarray 1 of 2 G4481A
GPL4090 Agilent-013903 Human Proximal Promoter ChIP-on-Chip Set, Microarray 2 of 2 G4481A
GPL4727 Human Promoter -800+300 Set, Slide 1 of 2 G2514A Option 002 Agilent-013185
Samples (14)
GSM230030 251318510269_K27LNCaP
GSM230031 251318510270_K27LNCaP
GSM230032 251318510271_SUZ12LNCaP
Relations
BioProject PRJNA102581

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
GSE9069_RAW.tar 123.9 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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