结肠正常黏膜和腺癌中差异表达基因的生物信息学分析

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

目的 :系统地分析由 SSH方法获得的结肠正常黏膜和腺癌的差异表达基因。方法 :构建基于 L inux的核酸自动分析平台 ,对用 SSH方法获得的 3个文库之一的 T- N差减文库进行分析。用半定量 RT- PCR对部分结果进行验证。结果 :成功构建了基于 Linux的核酸自动分析平台 ,得到了 15个 contigs,其中与已知基因相匹配的有 13个(T- N) ,未与已知基因匹配或者意义未明的有 2个 ;部分基因的半定量 RT- PCR发现 ,人胸腺素 β4 (H omo Sapiensthymosin beta4 ,THY)和人乙型肝炎病毒 x抗原反式活化蛋白 2 (H omo Sapiens H bx Ag transactivated protein2 ,XTP)的表达从正常黏膜 -腺癌有逐步增高的趋势。结论 :构建基于 L inux的核酸自动分析平台是系统分析核酸序列的有效方法 ,根据对 3个文库的系统分析结果 ,为进一步阐明结肠肿瘤分子机制提供了许多有价值的信息。

Objective: To systemically analyze the differentially expressed genes from normal mucosa and carcinoma of colon obtained by SSH method. Methods: An 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. Results: The 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. Conclusion: Linux-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.