Integration of high-resolution array comparative genomic hybridization analysis of chromosome 16q with expression array data refines common regions of loss at 16q23-qter and identifies underlying candidate tumor suppressor genes in prostate cancer

Oncogene. 2004 Apr 22;23(19):3487-94. doi: 10.1038/sj.onc.1207474.

J E Vivienne Watson ¹, Norman A Doggett, Donna G Albertson, Armann Andaya, Arul Chinnaiyan, Herman van Dekken, David Ginzinger, Christopher Haqq, Karen James, Sherwin Kamkar, David Kowbel, Daniel Pinkel, Lars Schmitt, Jeffry P Simko, Stanislav Volik, Vivian K Weinberg, Pamela L Paris, Colin Collins

Affiliations

Affiliation

1 Collins Lab, UCSF Comprehensive Cancer Center, University of California, 2340 Sutter Street, San Francisco, USA. vwatson@cc.ucsf.edu

PMID: 15007382 DOI: 10.1038/sj.onc.1207474

Abstract

We have constructed a high-resolution genomic microarray of human chromosome 16q, and used it for comparative genomic hybridization analysis of 16 prostate tumors. We demarcated 10 regions of genomic loss between 16q23.1 and 16qter that occurred in five or more samples. Mining expression array data from four independent studies allowed us to identify 11 genes that were frequently underexpressed in prostate Cancer and that co-localized with a region of genomic loss. Quantitative expression analyses of these genes in matched tumor and benign tissue from 13 patients showed that six of these 11 (WWOX, WFDC1, MAF, FOXF1, MVD and the predicted novel transcript Q9H0B8 (NM_031476)) had significant and consistent downregulation in the tumors relative to normal prostate tissue expression making them candidate tumor suppressor genes.

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