Bioinformatics analysis to the differentially expressed genes of normal mucosa and carcinoma of colon.

Xue-mei GU; Hao Zhang; Mao-de Lai

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Bioinformatics analysis to the differentially expressed genes of normal mucosa and carcinoma of colon.

Author: Xue-mei GU ¹ ; Hao ZHANG ; Mao-de LAI
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1. Department of Pathology and Pathophysiology, Center for Environmental Genomics, College of Medicine, Zhejiang University, Hangzhou 310031, China.
Publication Type:Journal Article
MeSH: Colon; metabolism; Colonic Neoplasms; genetics; Computational Biology; Female; Gene Expression Profiling; Humans; Intestinal Mucosa; metabolism; Male; Reverse Transcriptase Polymerase Chain Reaction
From: Journal of Zhejiang University. Medical sciences 2004;33(2):95-124
CountryChina
Language:Chinese
Abstract:
OBJECTIVETo systemically analyze the differentially expressed genes from normal mucosa and carcinoma of colon obtained by SSH method.
METHODSAn automatic platform for the analysis of nucleotides based on Linux was constructed, and one of the three subtracted libraries from SSH (T -N) was systematically analyzed by this platform. Part of the results was verified by semi- quantity RT-PCR.
RESULTThe automatic platform for the analysis of nucleotides based on Linux was successfully constructed. There were 15 contigs from the subtracted T-N libraries, among which 2 had no match with known genes in the GenBank. The expressions of genes Homo Sapiens thymosin beta 4 (THY) and Homo Sapiens HbxAg transactivated protein 2 (XTP) had trends of increase with the progress of normal tissue-adenoma-adenocarcinoma when verified by semi- quantity RT-PCR.
CONCLUSIONLinux-based automatic platform provides an efficient way to systematically analyze the nucleotide sequences, which may be used in study on the mechanism of colorectal carcinogenesis.