Copy number and gene expression differences between African American and Caucasian American prostate cancer Journal Article


Authors: Rose, A. E.; Satagopan, J. M.; Oddoux, C.; Zhou, Q.; Xu, R.; Olshen, A. B.; Yu, J. Z.; Dash, A.; Jean-Gilles, J.; Reuter, V.; Gerald, W. L.; Lee, P.; Osman, I.
Article Title: Copy number and gene expression differences between African American and Caucasian American prostate cancer
Abstract: Background: The goal of our study was to investigate the molecular underpinnings associated with the relatively aggressive clinical behavior of prostate cancer (PCa) in African American (AA) compared to Caucasian American (CA) patients using a genome-wide approach.Methods: AA and CA patients treated with radical prostatectomy (RP) were frequency matched for age at RP, Gleason grade, and tumor stage. Array-CGH (BAC SpectralChip2600) was used to identify genomic regions with significantly different DNA copy number between the groups. Gene expression profiling of the same set of tumors was also evaluated using Affymetrix HG-U133 Plus 2.0 arrays. Concordance between copy number alteration and gene expression was examined. A second aCGH analysis was performed in a larger validation cohort using an oligo-based platform (Agilent 244K).Results: BAC-based array identified 27 chromosomal regions with significantly different copy number changes between the AA and CA tumors in the first cohort (Fisher's exact test, P < 0.05). Copy number alterations in these 27 regions were also significantly associated with gene expression changes. aCGH performed in a larger, independent cohort of AA and CA tumors validated 4 of the 27 (15%) most significantly altered regions from the initial analysis (3q26, 5p15-p14, 14q32, and 16p11). Functional annotation of overlapping genes within the 4 validated regions of AA/CA DNA copy number changes revealed significant enrichment of genes related to immune response.Conclusions: Our data reveal molecular alterations at the level of gene expression and DNA copy number that are specific to African American and Caucasian prostate cancer and may be related to underlying differences in immune response. © 2010 Rose et al; licensee BioMed Central Ltd.
Keywords: adult; clinical article; controlled study; human tissue; aged; middle aged; genetics; cancer growth; comparative study; cancer staging; cluster analysis; gene expression; gene expression profiling; genetic variability; prostate cancer; prostatic neoplasms; gene expression regulation; chromosome aberration; gene expression regulation, neoplastic; immune response; prostatectomy; prostate tumor; immunity; chromosome aberrations; tumor gene; chromosomes, human; comparative genomic hybridization; race difference; african americans; european continental ancestry group; human chromosome; african american; european american; caucasian; chromosome 14q; chromosome 5p; dna copy number variations; copy number variation; chromosome 16p; chromosome 13q; genes, neoplasm
Journal Title: Journal of Translational Medicine
Volume: 8
ISSN: 1479-5876
Publisher: Biomed Central Ltd  
Date Published: 2010-07-22
Start Page: 70
Language: English
DOI: 10.1186/1479-5876-8-70
PUBMED: 20649978
PROVIDER: scopus
PMCID: PMC2913940
DOI/URL:
Notes: --- - "Export Date: 20 April 2011" - "Art. No.: 70" - "Source: Scopus"
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MSK Authors
  1. Jaya M Satagopan
    141 Satagopan
  2. Atreya Dash
    11 Dash
  3. William L Gerald
    375 Gerald
  4. Qin Zhou
    218 Zhou
  5. Adam B Olshen
    107 Olshen
  6. Victor Reuter
    1198 Reuter