標題: GI-POP: A combinational annotation and genomic island prediction pipeline for ongoing microbial genome projects
作者: Lee, Chi-Ching
Chen, Yi-Ping Phoebe
Yao, Tzu-Jung
Ma, Cheng-Yu
Lo, Wei-Cheng
Lyu, Ping-Chiang
Tang, Chuan Yi
生物科技學系
Department of Biological Science and Technology
關鍵字: Genome annotation;Genomic island;Web server;Ongoing genome project;Microorganism
公開日期: 10-四月-2013
摘要: Sequencing of microbial genomes is important because of microbial-carrying antibiotic and pathogenetic activities. However, even with the help of new assembling software, finishing a whole genome is a time-consuming task. In most bacteria, pathogenetic or antibiotic genes are carried in genomic islands. Therefore, a quick genomic island (GI) prediction method is useful for ongoing sequencing genomes. In this work, we built a Web server called GI-POP (http://gipop.life.nthu.edu.tw) which integrates a sequence assembling tool, a functional annotation pipeline, and a high-performance GI predicting module, in a support vector machine (SVM)-based method called genomic island genomic profile scanning (GI-GPS). The draft genomes of the ongoing genome projects in contigs or scaffolds can be submitted to our Web server, and it provides the functional annotation and highly probable GI-predicting results. GI-POP is a comprehensive annotation Web server designed for ongoing genome project analysis. Researchers can perform annotation and obtain pre-analytic information include possible GIs, coding/non-coding sequences and functional analysis from their draft genomes. This pre-analytic system can provide useful information for finishing a genome sequencing project. (c) 2012 Elsevier B.V. All rights reserved.
URI: http://dx.doi.org/10.1016/j.gene.2012.11.063
http://hdl.handle.net/11536/21325
ISSN: 0378-1119
DOI: 10.1016/j.gene.2012.11.063
期刊: GENE
Volume: 518
Issue: 1
起始頁: 114
結束頁: 123
顯示於類別:會議論文


文件中的檔案:

  1. 000316424100016.pdf