Meta- and gene set analysis of stomach cancer gene expression data

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Title
Meta- and gene set analysis of stomach cancer gene expression data
Author(s)
Seon-Young KimJeong Hwan Kim; H S Lee; S M Noh; K S Song; J S Cho; H Y Jeong; W H Kim; Young Il YeomNam-Soon Kim; S Kim; Hyang Sook Yoo; Yong Sung Kim
Bibliographic Citation
Molecules and Cells, vol. 24, no. 2, pp. 200-209
Publication Year
2007
Abstract
We generated gene expression data from the tissues of 50 gastric cancer patients, and applied meta-analysis and gene set analysis to this data and three other stomach cancer gene expression data sets to define the gene expression changes in gastric tumors. By meta-analysis we identified genes consistently changed in gastric carcinomas, while gene set analysis revealed consistently changed biological themes. Genes and gene sets involved in digestion, fatty acid metabolism, and ion transport were consistently down-regulated in gastric carcinomas, while those involved in cellular proliferation, cell cycle, and DNA replication were consistently up-regulated. We also found significant differences between the genes and gene sets expressed in diffuse and intestinal type gastric carcinoma. By gene set analysis of cytogenetic bands, we identified many chromosomal regions with possible gross chromosomal changes (amplifications or deletions). Similar analysis of transcription factor binding sites (TFBSs), revealed transcription factors that may have caused the observed gene expression changes in gastric carcinomas, and we confirmed the overexpression of one of these, E2FI, in many gastric carcinomas by tissue array and immunohistochemistry.
Keyword
databasegastric cancergene setmeta-analysismicroarray
ISSN
1016-8478
Publisher
Korea Soc-Assoc-Inst
Type
Article
Appears in Collections:
Korea Bioinformation Center > 1. Journal Articles
Division of Biomedical Research > Personalized Genomic Medicine Research Center > 1. Journal Articles
Division of Biomedical Research > Rare Disease Research Center > 1. Journal Articles
Division of Biomedical Research > Genome Editing Research Center > 1. Journal Articles
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