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[1]黄子夏,柯才焕,陈军*.大规模GO注释的生物信息学流程[J].厦门大学学报(自然科学版),2012,51(1):139.
 HUANG Zi xia,KE Cai huan,CHEN Jun*.Bioinformatics Procedure of Largescale GO Annotation[J].Journal of Xiamen University(Natural Science),2012,51(1):139.
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《厦门大学学报(自然科学版)》[ISSN:0438-0479/CN:35-1070/N]

卷:
51卷
期数:
2012年第1期
页码:
139
栏目:
研究论文
出版日期:
2012-01-15

文章信息/Info

Title:
Bioinformatics Procedure of Largescale GO Annotation
作者:
黄子夏柯才焕陈军*
厦门大学海洋与环境学院,福建 厦门 361005
Author(s):
HUANG ZixiaKE CaihuanCHEN Jun*
College of Oceanography and Environmental Science,Xiamen University,Xiamen 361005,China
关键词:
LSGAPGO注释基因功能生物信息学
Keywords:
LSGAPGO annotationgene functionbioinformatics
分类号:
Q 7;TP 319
文献标志码:
-
摘要:
随着新一代测序技术的不断发展,海量的序列数据将为生物学研究者挖掘基因信息提供巨大的资源.信息挖掘的一项重要工作是对序列进行功能注释,其中最重要的功能注释方式是基因本体论(Gene Ontology,GO)的注释.利用生物信息学方法和软件工具集成了针对EST序列的大规模GO注释流程(largescale GO annotation pipeline, LSGAP).该流程集合了BLAST、B2g4pipe以及Wego等软件和Swissprot、Nr或Interpro等常用蛋白数据库.用户可以将EST序列
Abstract:
With the fast development of nextgeneration sequencing technologies,a large number of biological data will provide tremendous sequence resources to biologists in gene exploitation.An important task on data mining is to annotate genes with functions,and the most important method is Gene Ontology (GO) annotation.This research formed the procedure of largescale GO annotation pipeline for EST sequences,utilizing bioinformatics methodologies and software tools.This procedure encompasses different software like BLAST,B2g4pipe and Wego,together with Swissprot,Interpro or Nr protein databases.Users can put EST sequences with FASTA format through this system and ultimately gain visualized GO distribution statistics diagrams,which demonstrate the situations of the genes involved in different processes.In order to test and verify the preciseness of LSGAP,the EST sequences of eastern oyster published in 2007 were gone through this pipeline,and the results demonstrated that LSGAP procedure was quite accurate and efficient.Compared with other GO annotation software such as Blast2go (Graphical User Interface) and GoBlast,LSGAP procedure has many advantages:running BLAST software locally,without downloading many GO relative databases and consuming less time.All of the results demonstrated that LSGAP is an efficient tool for researchers to do data mining.

参考文献/References:

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备注/Memo

备注/Memo:
收稿日期:20110504基金项目:国家重点基础研究发展计划(973)项目(2010CB126403); 国家自然科学基金项目(40976093);福建省青年科技人才创新项目(2008F3098)*通信作者:chenjun@xmu.edu.cn
更新日期/Last Update: 2012-01-15