肝细胞癌中差异表达的表达序列标签的生物信息学分析

Analysis of ESTs differentially expressed in HCC by Bioinformatics strategy

目的:采用生物信息学方法分析、预测在原发性肝细胞癌(HCC)中差异表达的表达序列标签(EST)的结构与功能,指导实验研究。方法:应用Blastn、SequencherTM、ORF Finder和DNASIS等软件分析肝细胞癌中差异表达的EST的全长、开放读码框、电子表达谱、染色体定位和编码蛋白质的功能。结果:获得2条新的cDNA全长序列;2条EST分别定位于2p13～15、3p14;高表达EST主要表达于肿瘤组织,低表达EST主要表达于正常组织;高表达基因编码蛋白质参与细胞信号转导、前mRNA加工和细胞骨架组装,低表达基因编码蛋白质与机体T淋巴细胞介导的免疫反应有关。结论:生物信息学技术有助于高效、快速地克隆、鉴定新基因。

Aim :To guide the laboratory bench-work, the full-length cDNA sequence, open reading frame(ORF) , e-lectronic expression pattern and position on chromosome of two expression sequence tags( EST) which were differentially expressed in HCC ( one was highly expressed, andthe other one, AV647952, lowly expressed in HCC) by bioinformatics methods, and their functionwas predicted. Methods: Softwares such as Blastn, SequencherTM , ORF Finder and DNASIS were used for these purposes. Results: Two novel full-length cDNA sequence were obtained, which were consistent with the results gained by RACE and sequencing. They mapped to 2pl3 - 15, 3pl4, and mainly expressed in carcinoma, normal tissues respectively. The protein coded by highly expressed gene may take part in regulation in signal transduction, pre-mRNA processing and cytoskeleton assembly, and the other one involved in CD8 + -T-Cell-Mediated immune response. Conclusion: Bioinformatics strategy is very useful in efficient, rapid cloning and identification novel gene.