Array-based comparative genomic hybridization for genome-wide screening of DNA copy number in bladder tumors

Joris A. Veltman, Jane Fridlyand, Sunanda Pejavar, Adam B. Olshen, James Korkola, Sandy DeVries, Peter Carroll, Wen Lin Kuo, Daniel Pinkel, Donna Albertson, Carlos Cordon-Cardo, Ajay N. Jain, Frederic M. Waldman

Research output: Contribution to journalArticle

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Abstract

Genome-wide copy number profiles were characterized in 41 primary bladder tumors using array-based comparative genomic hybridization (array CGH). In addition to previously identified alterations in large chromosomal regions, alterations were identified in many small genomic regions, some with high-level amplifications or homozygous deletions. High-level amplifications were detected for 192 genomic clones, most frequently at 6p22.3 (E2F3), 8p12 (FGFR1), 8q22.2 (CMYC), 11q13 (CCND1, EMS1, INT2), and 19q13.1 (CCNE). Homozygous deletions were detected in 51 genomic clones, with four showing deletions in more than one case: two clones mapping to 9p21.3 (CDKN2A/p16, in nine cases), one at 8p23.1 (three cases), and one at 11p13 (two cases). Significant correlations were observed between copy number gain of clones containing CCNE1 and gain of ERBB2, and between gain of CCND1 and deletion of TP53. In addition, there was a significant complementary association between gain of CCND1 and gain of E2F3. Although there was no significant relationship between copy number changes and tumor stage or grade, the linked behavior among genomic loci suggests that array CGH will be increasingly important in understanding pathways critical to bladder tumor biology.

Original languageEnglish (US)
Pages (from-to)2872-2880
Number of pages9
JournalCancer Research
Volume63
Issue number11
StatePublished - Jun 1 2003
Externally publishedYes

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Comparative Genomic Hybridization
Urinary Bladder Neoplasms
Clone Cells
Genome
DNA
Critical Pathways
Neoplasms

ASJC Scopus subject areas

  • Cancer Research
  • Oncology

Cite this

Veltman, J. A., Fridlyand, J., Pejavar, S., Olshen, A. B., Korkola, J., DeVries, S., ... Waldman, F. M. (2003). Array-based comparative genomic hybridization for genome-wide screening of DNA copy number in bladder tumors. Cancer Research, 63(11), 2872-2880.

Array-based comparative genomic hybridization for genome-wide screening of DNA copy number in bladder tumors. / Veltman, Joris A.; Fridlyand, Jane; Pejavar, Sunanda; Olshen, Adam B.; Korkola, James; DeVries, Sandy; Carroll, Peter; Kuo, Wen Lin; Pinkel, Daniel; Albertson, Donna; Cordon-Cardo, Carlos; Jain, Ajay N.; Waldman, Frederic M.

In: Cancer Research, Vol. 63, No. 11, 01.06.2003, p. 2872-2880.

Research output: Contribution to journalArticle

Veltman, JA, Fridlyand, J, Pejavar, S, Olshen, AB, Korkola, J, DeVries, S, Carroll, P, Kuo, WL, Pinkel, D, Albertson, D, Cordon-Cardo, C, Jain, AN & Waldman, FM 2003, 'Array-based comparative genomic hybridization for genome-wide screening of DNA copy number in bladder tumors', Cancer Research, vol. 63, no. 11, pp. 2872-2880.
Veltman JA, Fridlyand J, Pejavar S, Olshen AB, Korkola J, DeVries S et al. Array-based comparative genomic hybridization for genome-wide screening of DNA copy number in bladder tumors. Cancer Research. 2003 Jun 1;63(11):2872-2880.
Veltman, Joris A. ; Fridlyand, Jane ; Pejavar, Sunanda ; Olshen, Adam B. ; Korkola, James ; DeVries, Sandy ; Carroll, Peter ; Kuo, Wen Lin ; Pinkel, Daniel ; Albertson, Donna ; Cordon-Cardo, Carlos ; Jain, Ajay N. ; Waldman, Frederic M. / Array-based comparative genomic hybridization for genome-wide screening of DNA copy number in bladder tumors. In: Cancer Research. 2003 ; Vol. 63, No. 11. pp. 2872-2880.
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