利用cDNA微阵列上的CGH对人前列腺癌基因拷贝数变化的高分辨率分析:拷贝数对基因表达的影响。

IF 6.3 2区 医学 Q1 ONCOLOGY
Neoplasia Pub Date : 2004-05-01 DOI:10.1593/NEO.03439
M. Wolf, S. Mousses, S. Hautaniemi, R. Karhu, P. Huusko, M. Allinen, A. Elkahloun, O. Monni, Yidong Chen, A. Kallioniemi, O. Kallioniemi
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引用次数: 141

摘要

前列腺癌基因重排靶基因的鉴定以及拷贝数变化对基因表达的影响目前还不是很清楚。在这里,我们应用高分辨率比较基因组杂交(CGH)的cDNA微阵列分析前列腺癌细胞系。CGH微阵列识别了经典染色体CGH检测到的大多数改变,以及一些以前未报道的改变。发现了增益(28)和损耗(18)的特定循环区域,并以亚兆对精度定义了它们的边界。最常见的变化包括拷贝数在13q时减少,在1q和5p时增加。精确的定位确定了几个位点,如13q(33-44、49-51和74-76 Mbp,距p端粒),这些位点与大量肿瘤杂合性定位研究中广泛缺失的最小缺失区域相匹配。在2p, 2q, 3p和17q(损失)以及3q, 5p和6p(收益)发现了以前未报道的反复变化。基因组学和转录组学数据的整合揭示了个体候选靶基因在基因组改变中的作用,以及拷贝数水平与差异表达基因百分比之间高度显著(P < 0.0001)的整体关联。在整个基因组中,拷贝数对基因表达水平的总体影响在很大程度上归因于拷贝数的低水平增加和减少,对应于通常较大的染色体区域的常见缺失和增加。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
High-resolution analysis of gene copy number alterations in human prostate cancer using CGH on cDNA microarrays: impact of copy number on gene expression.
Identification of target genes for genetic rearrangements in prostate cancer and the impact of copy number changes on gene expression are currently not well understood. Here, we applied high-resolution comparative genomic hybridization (CGH) on cDNA microarrays for analysis of prostate cancer cell lines. CGH microarrays identified most of the alterations detected by classic chromosomal CGH, as well as a number of previously unreported alterations. Specific recurrent regions of gain (28) and loss (18) were found, and their boundaries defined with sub-megabasepair accuracy. The most common changes included copy number decreases at 13q, and gains at 1q and 5p. Refined mapping identified several sites, such as at 13q (33-44, 49-51, and 74-76 Mbp from the p-telomere), which matched with minimal regions of loss seen in extensive loss of heterozygosity mapping studies of large numbers of tumors. Previously unreported recurrent changes were found at 2p, 2q, 3p, and 17q (losses), and at 3q, 5p, and 6p (gains). Integration of genomic and transcriptomic data revealed the role of individual candidate target genes for genomic alterations as well as a highly significant (P <.0001) overall association between copy number levels and the percentage of differentially expressed genes. Across the genome, the overall impact of copy number on gene expression levels was, to a large extent, attributable to low-level gains and losses of copy number, corresponding to common deletions and gains of often large chromosomal regions.
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来源期刊
Neoplasia
Neoplasia ONCOLOGY-
自引率
2.10%
发文量
82
期刊介绍: Neoplasia publishes the results of novel investigations in all areas of oncology research. The title Neoplasia was chosen to convey the journal’s breadth, which encompasses the traditional disciplines of cancer research as well as emerging fields and interdisciplinary investigations. Neoplasia is interested in studies describing new molecular and genetic findings relating to the neoplastic phenotype and in laboratory and clinical studies demonstrating creative applications of advances in the basic sciences to risk assessment, prognostic indications, detection, diagnosis, and treatment. In addition to regular Research Reports, Neoplasia also publishes Reviews and Meeting Reports. Neoplasia is committed to ensuring a thorough, fair, and rapid review and publication schedule to further its mission of serving both the scientific and clinical communities by disseminating important data and ideas in cancer research.
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