引用本文:WANG Cheng-gang MO Zhi-hong.[en_title][J].Journal of Chongqing University (English Edition),2007,6(3):151~154
.Integrating Gene Ontology and Blast to predict gene functions[J].Journal of Chongqing University (English Edition),2007,6(3):151~154
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Integrating Gene Ontology and Blast to predict gene functions
WANG Cheng-gang MO Zhi-hong
作者单位
摘要:
A GoBlast system was built to predict gene function by integrating Blast search and Gene Ontology (GO) annotations together. The operation system was based on Debian Linux 3.1, with Apache as the web server and Mysql database as the data storage system. F
关键词:  基因 本体论 疾病 功能预报
DOI:
分类号:Q7
基金项目:
Integrating Gene Ontology and Blast to predict gene functions
WANG Cheng-gang  MO Zhi-hong
Abstract:
A GoBlast system was built to predict gene function by integrating Blast search and Gene Ontology (GO) annotations together. The operation system was based on Debian Linux 3.1, with Apache as the web server and Mysql database as the data storage system. FASTA files with GO annotations were taken as the sequence source for blast alignment, which were formatted by wu-formatdb program. The GoBlast system includes three Bioperl modules in Perl: a data input module, a data process module and a data output module. A GoBlast query starts with an amino acid or nucleotide sequence. It ends with an output in an html page, presenting high scoring gene products which are of a high homology to the queried sequence and listing associated GO terms beside respective gene poducts. A simple click on a GO term leads to the detailed explanation of the specific gene function. This avails gene function prediction by Blast. GoBlast can be a very useful tool for functional genome research and is available for free at http://bioq.org/goblast.
Key words:  gene ontology  Blast  gene function prediction
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