基于unix的cDNA序列自动分析系统的构建和应用  

Construction and Application of a Large Scale cDNA Sequences Analysis System Based on Unix

作　　者：符志彦[1] 卢阳[1] 叶兰汀 何智良 徐安龙[1] 

机构地区：[1]中山大学生命科学学院,广东广州510275

出　　处：《中山大学学报（自然科学版）》2002年第5期60-63,共4页Acta Scientiarum Naturalium Universitatis Sunyatseni

基　　金：国家自然科学基金资助项目 (3980 0 0 73) ;国家自然科学基金重点资助项目 (6 9935 0 2 0 )

摘　　要：基于unix/linux操作系统和mysql数据库 ,利用phred/phrap ,stackpack ,blast软件 ,对cDNA和EST序列进行大规模自动分析。它可以完成从测序峰图文件向核酸序列的转化 ,去除载体污染和重复序列 ,序列聚类 ,拼接 ,分析可变剪切 ,数据库搜索进行相似性分析。该系统可以加速大规模EST测序的分析速度。With increasing huge amount of cDNA sequences have been obtained since the human genome project, a powerful system is urgently needed for data mining these cDNA sequences. Based on unix/linux operating system, phred/phrap, stackpack and blast software have been used to construct a platform for batch analysis of cDNA and EST sequences, including base_calling, vector and repeat sequence removing, sequence clustering, assembling, alternative splicing analysis and sequence alignment. Our results demonstrated that this platform could accelerate data analysis for large scale EST sequencing and suggest some useful clues.

关 键 词：cDNA序列自动分析系统 大规模测序 unix/linux操作系统 phred/phrap软件 stackpack软件 blast软件 系统开发 MYSQL数据库 

分 类 号：TP392[自动化与计算机技术—计算机应用技术] Q754[自动化与计算机技术—计算机科学与技术]