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  • Oncogenomics
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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 volume 23, pages 3487–3494 (2004)Cite this article

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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Acknowledgements

We thank Graeme Hodgson and Eric Gagne for advice, Maime Yu, Marcella Fasso, Ajay Jain and Jane Fridlyand for technical assistance, Karen Taylor for supplying PAC clones, Terrence Barrette for expression array data, and Peter Carroll and Karen Chew for patient material. This work was supported by the National Cancer Institute (Prostate Cancer SPORE Grant CA89520).

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Authors and Affiliations

  1. Collins Lab, UCSF Comprehensive Cancer Center, University of California, 2340 Sutter Street, San Francisco, USA

    J E Vivienne Watson, Donna G Albertson, Armann Andaya, 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

  2. Bioscience Division, Los Alamos National Laboratory, Los Alamos, 87545, NM, USA

    Norman A Doggett

  3. Department of Pathology, University of Michigan Medical School, Ann Arbor, 48109-0602, MI, USA

    Arul Chinnaiyan

  4. Erasmus Medical Center, University Medical Center, Rotterdam, The Netherlands

    Herman van Dekken

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  1. J E Vivienne Watson
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Correspondence to J E Vivienne Watson.

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Vivienne Watson, J., Doggett, N., Albertson, D. et al. 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 23, 3487–3494 (2004). https://doi.org/10.1038/sj.onc.1207474

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