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Title 

Towards pathogenomics: a web-based resource for pathogenicity islands

Authors 

Sung Ho YoonYoung-Kyu ParkSooHyun LeeD ChoiTae Kwang OhCheol-Goo HurJihyun Kim

Publisher 

Oxford University Press

Issue Date 

2007

Citation 

Nucleic Acids Research, vol. 35, no. DB, pp. D395-D400

Keywords 

access to informationanalytic methodbacterial genomebacterial straincomputer interfaceGenBankgenetic databasegenetic similaritynonhumanonline analysis

Abstract 

Pathogenicity islands (PAIs) are genetic elements whose products are essential to the process of disease development. They have been horizontally (laterally) transferred from other microbes and are important in evolution of pathogenesis. In this study, a comprehensive database and search engines specialized for PAIs were established. The pathogenicity island database (PAIDB) is a comprehensive relational database of all the reported PAIs and potential PAI regions which were predicted by a method that combines feature-based analysis and similarity-based analysis. Also, using the PAI Finder search application, a multi-sequence query can be analyzed onsite for the presence of potential PAIs. As of April 2006, PAIDB contains 112 types of PAIs and 889 GenBank accessions containing either partial or all PAI loci previously reported in the literature, which are present in 497 strains of pathogenic bacteria. The database also offers 310 candidate PAIs predicted from 118 sequenced prokaryotic genomes. With the increasing number of prokaryotic genomes without functional inference and sequenced genetic regions of suspected involvement in diseases, this web-based, user-friendly resource has the potential to be of significant use in pathogenomics. PAIDB is freely accessible at http://www.gem.re.kr/ paidb.

ISSN 

0305-1048

Link 

http://dx.doi.org/10.1093/nar/gkl790

Appears in Collections

1. Journal Articles > Journal Articles

Registered Date

2019-05-02


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