This Article Full Text Full Text (PDF) Supplementary Data Alert me when this article is cited Alert me if a correction is posted Services Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Citing Articles Citing Articles via HighWire Citing Articles via Google Scholar Google Scholar Articles by Bayani, J. Articles by Squire, J. A. Search for Related Content PubMed PubMed Citation Articles by Bayani, J. Articles by Squire, J. A.

Parallel Analysis of Sporadic Primary Ovarian Carcinomas by Spectral Karyotyping, Comparative Genomic Hybridization, and Expression Microarrays^{1 ,, 2}

Ontario Cancer Institute [J. B., B. B., D. N., J. K., B. Z., J. A. S.] and Departments of Medical Oncology and Hematology [J. D. B., B. Z.] and Gynecological Oncology [B. R., J. M., S. L.], Princess Margaret Hospital, University Health Network; Departments of Medical Biophysics [B. Z., J. A. S.] and Laboratory Medicine and Pathobiology [J. B., B. B., J. A. S.], University of Toronto; and Microarray Centre [P. F. M., M. A.], Clinical Genomics Center, University Health Network, Toronto M5G 2M9, Canada

Analysis of ovarian carcinomas has shown that karyotypes are often highly abnormal and cannot be identified with certainty by conventional cytogenetic methods. In this study, 17 tumors derived from 13 patients were analyzed by a combination of spectral karyotyping (SKY), comparative genomic hybridization (CGH), and expression microarrays. Within the study group, a total of 396 chromosomal rearrangements could be identified by SKY and CGH analysis. When the distribution of aberrations was normalized with respect to relative genomic length, chromosomes 3, 8, 11, 17, and 21 had the highest frequencies. Parallel microarray expression studies of 1718 human cDNAs were used to analyze expression profiles and to determine whether correlating gene expression with chromosomal rearrangement would identify smaller subsets of differentially expressed genes. Within the entire set of samples, microarray expression analysis grouped together poorly differentiated tumors irrespective of histological subtype. For three patients, a comparison between genomic alterations and gene expression pattern was performed on samples of primary and metastatic tumors. Their common origin was demonstrated by the close relationship of both the SKY and CGH karyotypes and the observed profiles of gene expression. In agreement with the pattern of genomic imbalance observed for chromosome 3 in ovarian cancer, the relative expression profile with respect to a normal ovary exhibited a contiguous pattern of reduced expression of genes mapping to the 3p25.5–3p21.31 and increased expression of genes from 3q13.33–3q28. This study demonstrates that SKY, CGH, and microarray analysis can in combination identify significantly smaller subsets of differentially expressed genes for future studies.

This article has been cited by other articles:

				K. K. Zorn, T. Bonome, L. Gangi, G. V.R. Chandramouli, C. S. Awtrey, G. J. Gardner, J. C. Barrett, J. Boyd, and M. J. Birrer Gene Expression Profiles of Serous, Endometrioid, and Clear Cell Subtypes of Ovarian and Endometrial Cancer Clin. Cancer Res., September 15, 2005; 11(18): 6422 - 6430. [Abstract] [Full Text] [PDF]

				A. M. Levin, D. Ghosh, K. R. Cho, and S. L. R. Kardia A model-based scan statistic for identifying extreme chromosomal regions of gene expression in human tumors Bioinformatics, June 15, 2005; 21(12): 2867 - 2874. [Abstract] [Full Text] [PDF]

				K. Hibbs, K. M. Skubitz, S. E. Pambuccian, R. C. Casey, K. M. Burleson, T. R. Oegema Jr, J. J. Thiele, S. M. Grindle, R. L. Bliss, and A. P.N. Skubitz Differential Gene Expression in Ovarian Carcinoma: Identification of Potential Biomarkers Am. J. Pathol., August 1, 2004; 165(2): 397 - 414. [Abstract] [Full Text] [PDF]

				V. A. Heinzelmann-Schwarz, M. Gardiner-Garden, S. M. Henshall, J. Scurry, R. A. Scolyer, M. J. Davies, M. Heinzelmann, L. H. Kalish, A. Bali, J. G. Kench, et al. Overexpression of the Cell Adhesion Molecules DDR1, Claudin 3, and Ep-CAM in Metaplastic Ovarian Epithelium and Ovarian Cancer Clin. Cancer Res., July 1, 2004; 10(13): 4427 - 4436. [Abstract] [Full Text] [PDF]

				R. Varma, T. Rollason, J. K Gupta, and E. R Maher Endometriosis and the neoplastic process Reproduction, March 1, 2004; 127(3): 293 - 304. [Abstract] [Full Text] [PDF]

				S. D. Pack, O. M. Alper, K. Stromberg, M. Augustus, M. Ozdemirli, A. M. Miermont, G. Klus, M. Rusin, R. Slack, N. F. Hacker, et al. Simultaneous Suppression of Epidermal Growth Factor Receptor and c-erbB-2 Reverses Aneuploidy and Malignant Phenotype of a Human Ovarian Carcinoma Cell Line Cancer Res., February 1, 2004; 64(3): 789 - 794. [Abstract] [Full Text] [PDF]

				S. K. Gruvberger-Saal, P. Eden, M. Ringner, B. Baldetorp, G. Chebil, A. Borg, M. Ferno, C. Peterson, and P. S. Meltzer Predicting continuous values of prognostic markers in breast cancer from microarray gene expression profiles Mol. Cancer Ther., February 1, 2004; 3(2): 161 - 168. [Abstract] [Full Text] [PDF]

				K. Dobbin, J. H. Shih, and R. Simon Questions and Answers on Design of Dual-Label Microarrays for Identifying Differentially Expressed Genes J Natl Cancer Inst, September 17, 2003; 95(18): 1362 - 1369. [Full Text] [PDF]

				L. A. Loeb, K. R. Loeb, and J. P. Anderson Multiple mutations and cancer PNAS, February 4, 2003; 100(3): 776 - 781. [Abstract] [Full Text] [PDF]

				P. F. Macgregor and J. A. Squire Application of Microarrays to the Analysis of Gene Expression in Cancer Clin. Chem., August 1, 2002; 48(8): 1170 - 1177. [Abstract] [Full Text] [PDF]