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

J. E. Vivienne Watson; 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

doi:10.1038/sj.onc.1207474

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

J. E. Vivienne Watson, 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

Oral and Maxillofacial Surgery

Research output: Contribution to journal › Article › peer-review

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.

Original language	English (US)
Pages (from-to)	3487-3494
Number of pages	8
Journal	Oncogene
Volume	23
Issue number	19
DOIs	https://doi.org/10.1038/sj.onc.1207474
State	Published - Apr 22 2004

Keywords

Array CGH
Chromosome 16q
Prostate cancer
Tumor suppressor genes

ASJC Scopus subject areas

Molecular Biology
Genetics
Cancer Research

Access to Document

10.1038/sj.onc.1207474

Fingerprint

Dive into the research topics of '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'. Together they form a unique fingerprint.

Cite this

Vivienne Watson, J. E., Doggett, N. A., Albertson, D. G., Andaya, A., Chinnaiyan, A., Van Dekken, H., Ginzinger, D., Haqq, C., James, K., Kamkar, S., Kowbel, D., Pinkel, D., Schmitt, L., Simko, J. P., Volik, S., Weinberg, V. K., Paris, P. L., & Collins, C. (2004). 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(19), 3487-3494. https://doi.org/10.1038/sj.onc.1207474

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. / Vivienne Watson, J. E.; Doggett, Norman A.; Albertson, Donna G. et al.
In: Oncogene, Vol. 23, No. 19, 22.04.2004, p. 3487-3494.

Research output: Contribution to journal › Article › peer-review

Vivienne Watson, JE, Doggett, NA, Albertson, DG, Andaya, A, Chinnaiyan, A, Van Dekken, H, Ginzinger, D, Haqq, C, James, K, Kamkar, S, Kowbel, D, Pinkel, D, Schmitt, L, Simko, JP, Volik, S, Weinberg, VK, Paris, PL & Collins, C 2004, '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, vol. 23, no. 19, pp. 3487-3494. https://doi.org/10.1038/sj.onc.1207474

Vivienne Watson JE, Doggett NA, Albertson DG, Andaya A, Chinnaiyan A, Van Dekken H 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. 2004 Apr 22;23(19):3487-3494. doi: 10.1038/sj.onc.1207474

Vivienne Watson, J. E. ; Doggett, Norman A. ; Albertson, Donna G. 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. In: Oncogene. 2004 ; Vol. 23, No. 19. pp. 3487-3494.

@article{2752a98a32ad43bdb39c2ebbfa47eb20,

title = "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",

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.",

keywords = "Array CGH, Chromosome 16q, Prostate cancer, Tumor suppressor genes",

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

note = "Funding Information: 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).",

year = "2004",

month = apr,

day = "22",

doi = "10.1038/sj.onc.1207474",

language = "English (US)",

volume = "23",

pages = "3487--3494",

journal = "Oncogene",

issn = "0950-9232",

publisher = "Springer Nature",

number = "19",

}

TY - JOUR

T1 - 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

AU - Vivienne Watson, J. E.

AU - Doggett, Norman A.

AU - Albertson, Donna G.

AU - Andaya, Armann

AU - Chinnaiyan, Arul

AU - Van Dekken, Herman

AU - Ginzinger, David

AU - Haqq, Christopher

AU - James, Karen

AU - Kamkar, Sherwin

AU - Kowbel, David

AU - Pinkel, Daniel

AU - Schmitt, Lars

AU - Simko, Jeffry P.

AU - Volik, Stanislav

AU - Weinberg, Vivian K.

AU - Paris, Pamela L.

AU - Collins, Colin

N1 - Funding Information: 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).

PY - 2004/4/22

Y1 - 2004/4/22

N2 - 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.

AB - 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.

KW - Array CGH

KW - Chromosome 16q

KW - Prostate cancer

KW - Tumor suppressor genes

UR - http://www.scopus.com/inward/record.url?scp=2442707675&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=2442707675&partnerID=8YFLogxK

U2 - 10.1038/sj.onc.1207474

DO - 10.1038/sj.onc.1207474

M3 - Article

C2 - 15007382

AN - SCOPUS:2442707675

SN - 0950-9232

VL - 23

SP - 3487

EP - 3494

JO - Oncogene

JF - Oncogene

IS - 19

ER -

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

Abstract

Keywords

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this