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Bioinformatics Advance Access published online on May 4, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp293
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© The Author (2009). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

PESTAS: a web server for EST analysis and sequence mining

Seong-Hyeuk Nam 1,2,{dagger}, Dae-Won Kim 1,{dagger}, Tae-Sung Jung 1,{dagger}, Young-Sang Choi 3, Dong-Wook Kim 3, Han-Suk Choi 3, Sang-Haeng Choi 1 and Hong-Seog Park 1,2,*

1Genome Research Center(GRC), Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-306, Korea
2University of Science and Technology(UST), Daejeon 303-333, Korea
3Mokpo National University, Jeonnam 534-729 , Korea

*To whom correspondence should be addressed. Hong-Seog Park, E-mail: odysseus{at}kribb.re.kr


  Abstract

Summary: We have developed a web server for the high throughput annotation of expressed sequence tags (ESTs) called PESTAS (Pipeline for EST Analysis Service). PESTAS processes entire data sets with an automated pipeline of 13 analytic services, then deposits the data into the MySQL database and transforms it into three kinds of reports: preprocessing, assembling and annotation. All annotated information is provided to the scientist and can be downloaded through a web browser. To get more relevant functional annotation results, a curation function was introduced with which biologists can easily change the best-hit annotation information. We included a gene chip module that detects gene expression differences between libraries by comparing accession number counts from BLAST search results. PESTAS also provides access to the pathway information of KEGG, which is useful for mapping the relationships among networks of annotated enzymes, and is especially valuable for those researchers interested in biological pathways.

Availability: PESTAS is available at http://pestas.kribb.re.kr/

Supplementary information: Supplementary data are available at http://pestas.kribb.re.kr/pestas.jsp.

Contact: odysseus{at}kribb.re.kr

Associate Editor: Prof. John Quackenbush

{dagger}The authors wish it to be known that, in their opinion, the first three au-thors should be regarded as joint First Authors.

Received on January 8, 2009; revised on April 8, 2009; accepted on April 27, 2009

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