Author:
Cheng Lei,Wang Ping,Yang Sheng,Yang Yanqing,Zhang Qing,Zhang Wen,Xiao Huasheng,Gao Hengjun,Zhang Qinghua
Abstract
Abstract
Background
To elucidate gene expression associated with copy number changes, we performed a genome-wide copy number and expression microarray analysis of 25 pairs of gastric tissues.
Methods
We applied laser capture microdissection (LCM) to obtain samples for microarray experiments and profiled DNA copy number and gene expression using 244K CGH Microarray and Human Exon 1.0 ST Microarray.
Results
Obviously, gain at 8q was detected at the highest frequency (70%) and 20q at the second (63%). We also identified molecular genetic divergences for different TNM-stages or histological subtypes of gastric cancers. Interestingly, the C20orf11 amplification and gain at 20q13.33 almost separated moderately differentiated (MD) gastric cancers from poorly differentiated (PD) type. A set of 163 genes showing the correlations between gene copy number and expression was selected and the identified genes were able to discriminate matched adjacent noncancerous samples from gastric cancer samples in an unsupervised two-way hierarchical clustering. Quantitative RT-PCR analysis for 4 genes (C20orf11, XPO5, PUF60, and PLOD3) of the 163 genes validated the microarray results. Notably, some candidate genes (MCM4 and YWHAZ) and its adjacent genes such as PRKDC, UBE2V2, ANKRD46, ZNF706, and GRHL2, were concordantly deregulated by genomic aberrations.
Conclusions
Taken together, our results reveal diverse chromosomal region alterations for different TNM-stages or histological subtypes of gastric cancers, which is helpful in researching clinicopathological classification, and highlight several interesting genes as potential biomarkers for gastric cancer.
Publisher
Springer Science and Business Media LLC
Subject
Genetics(clinical),Genetics
Reference44 articles.
1. Parkin DM, Bray F, Ferlay J, Pisani P: Global cancer statistics, 2002. CA Cancer J Clin. 2005, 55 (2): 74-108. 10.3322/canjclin.55.2.74.
2. Powell SM: Stomach cancer. In the Genetic Basis of Human Cancer. Edited by: Vogelstein B, Kinzler K. 2002, McGraw-Hill, New York, 703-708. 2
3. Brenner H, Rothenbacher D, Arndt V: Epidemiology of stomach cancer. Methods Mol Biol. 2009, 472: 467-477. 10.1007/978-1-60327-492-0_23.
4. Tahara E: Oncogenes in human gastric carcinoma. Gan To Kagaku Ryoho. 1989, 16 (6): 2149-2155.
5. Jinawath N, Furukawa Y, Hasegawa S, Li M, Tsunoda T, Satoh S, Yamaguchi T, Imamura H, Inoue M, Shiozaki H, et al: Comparison of gene-expression profiles between diffuse- and intestinal-type gastric cancers using a genome-wide cDNA microarray. Oncogene. 2004, 23 (40): 6830-6844. 10.1038/sj.onc.1207886.
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