Genome-wide location map of Polycomb in prostate cancer

  • Jianjun Yu (Contributor)
  • J. Yu (University of Michigan, Ann Arbor) (Contributor)
  • Arul M. Chinnaiyan (Contributor)

Dataset

Description

Accession Number: GSE9069

Platform:
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
GPL4728: Human Promoter -800+300 Set, Slide 2 of 2 G2514A Option 002 Agilent-013186

Organism: Homo sapiens

Published on 2007-11-01

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.

Contact:
Name: Jindan Yu
Organization: Northwestern University
Laboratory: Yu
Deparment: Medicine - Hem/Onc
Address: 303 E. Superior St. Chicago IL 60611 USA
Email: jindan-yu@northwestern.edu

Organization: Agilent Technologies
Address: Palo Alto CA 94304 USA
Email: cag_sales-na@agilent.com
Phone: 877-424-4536
Web-Link: www.agilent.com
Date made availableSep 17 2007
PublisherGene Expression Omnibus

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