ArticlePloS one2012
Integration of DNA copy number alterations and transcriptional expression analysis in human gastric cancer.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers, 2 of them syntheses that pooled it.
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Who cites it
35 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Differential networking meta-analysis of gastric cancer across Asian and American racial groups.BMC systems biology · 2018Pooled it
- Association of genetic variants in and promoter hypermethylation of CDH1 with gastric cancer: a meta-analysis.Medicine · 2014Pooled it
- Cellular deconvolution of GTEx tissues powers discovery of disease and cell-type associated regulatory variants.Nature communications · 2020Article
- Association between Genetic Polymorphisms in Superoxide Dismutase Gene Family and Risk of Gastric Cancer.Pathology oncology research : POR · 2020Article
- Epigenetics mechanisms mediate the miR-125a/BRMS1 axis to regulate invasion and metastasis in gastric cancer.OncoTargets and therapy · 2019Article
- Multiple Omics Data Integration to Identify Long Noncoding RNA Responsible for Breast Cancer-Related Mortality.Cancer informatics · 2019Article
- Novel prognostic biomarkers of gastric cancer based on gene expression microarray: COL12A1, GSTA3, FGA and FGG.Molecular medicine reports · 2018Article
- A microsatellite based multiplex PCR method for the detection of chromosomal instability in gastric cancer.Scientific reports · 2018Article
- Diagnostic and prognostic value of circulating lncRNA H19 in gastric cancer.Biomedical reports · 2018Article
- Genes co-amplified withOncotarget · 2017Article
- Topoisomerase I copy number alterations as biomarker for irinotecan efficacy in metastatic colorectal cancer.BMC cancer · 2017Article
- Integrated Analysis of Genome-Wide Copy Number Alterations and Gene Expression Profiling of Lung Cancer in Xuanwei, China.PloS one · 2017Article
- Article
- Identification ofWorld journal of gastroenterology · 2016Article
- Gastric cancer and gene copy number variation: emerging cancer drivers for targeted therapy.Oncogene · 2016Review
- Challenges of deciphering gastric cancer heterogeneity.World journal of gastroenterology · 2015Review
- Integrated analyses of copy number variations and gene differential expression in lung squamous-cell carcinoma.Biological research · 2015Article
- Heterogeneity of amplification of HER2, EGFR, CCND1 and MYC in gastric cancer.BMC gastroenterology · 2015Article
- Copy Number Gains at 8q24 and 20q11-q13 in Gastric Cancer Are More Common in Intestinal-Type than Diffuse-Type.PloS one · 2015Article
- IQ Motif-Containing GTPase-Activating Protein 2 (IQGAP2) Is a Novel Regulator of Colonic Inflammation in Mice.PloS one · 2015Article
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenomic instability with frequent DNA copy number alterations is one of the key hallmarks of carcinogenesis. The chromosomal regions with frequent DNA copy number gain and loss in human gastric cancer are still poorly defined. It remains unknown how the DNA copy number variations contributes to the changes of gene expression profiles, especially on the global level. PRINCIPAL
findingsWe analyzed DNA copy number alterations in 64 human gastric cancer samples and 8 gastric cancer cell lines using bacterial artificial chromosome (BAC) arrays based comparative genomic hybridization (aCGH). Statistical analysis was applied to correlate previously published gene expression data obtained from cDNA microarrays with corresponding DNA copy number variation data to identify candidate oncogenes and tumor suppressor genes. We found that gastric cancer samples showed recurrent DNA copy number variations, including gains at 5p, 8q, 20p, 20q, and losses at 4q, 9p, 18q, 21q. The most frequent regions of amplification were 20q12 (7/72), 20q12-20q13.1 (12/72), 20q13.1-20q13.2 (11/72) and 20q13.2-20q13.3 (6/72). The most frequent deleted region was 9p21 (8/72). Correlating gene expression array data with aCGH identified 321 candidate oncogenes, which were overexpressed and showed frequent DNA copy number gains; and 12 candidate tumor suppressor genes which were down-regulated and showed frequent DNA copy number losses in human gastric cancers. Three networks of significantly expressed genes in gastric cancer samples were identified by ingenuity pathway analysis.
conclusionsThis study provides insight into DNA copy number variations and their contribution to altered gene expression profiles during human gastric cancer development. It provides novel candidate driver oncogenes or tumor suppressor genes for human gastric cancer, useful pathway maps for the future understanding of the molecular pathogenesis of this malignancy, and the construction of new therapeutic targets.
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