Table of Contents
ISRN Bioinformatics
Volume 2012, Article ID 139842, 5 pages
http://dx.doi.org/10.5402/2012/139842
Research Article

Bio301: A Web-Based EST Annotation Pipeline That Facilitates Functional Comparison Studies

1Institute of Information Science, Academia Sinica, 128 Academia Road, Section 2, Nankang, Taipei 115, Taiwan
2Department of Biomedical Engineering, The Whitaker Biomedical Engineering Institute at Johns Hopkins University School of Medicine, 720 Rutland Avenue, Baltimore, MD 21205, USA
3Institute of Plant and Microbial Biology, Academia Sinica, 128 Academia Road, Section 2, Nankang, Taipei 115, Taiwan
4Department of Bioscience Technology, Chung Yuan Christian University, 200 Chung Pei Road, Chung Li City 32073, Taiwan
5Graduate Institute of Biomedical Informatics, Taipei Medical University, 250 Wu-Hsing Street, Taipei City 110, Taiwan

Received 25 July 2011; Accepted 5 September 2011

Academic Editors: Q. Dong and A. Lukas

Copyright © 2012 Yen-Chen Chen et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Abstract

In this postgenomic era, a huge volume of information derived from expressed sequence tags (ESTs) has been constructed for functional description of gene expression profiles. Comparative studies have become more and more important to researchers of biology. In order to facilitate these comparative studies, we have constructed a user-friendly EST annotation pipeline with comparison tools on an integrated EST service website, Bio301. Bio301 includes regular EST preprocessing, BLAST similarity search, gene ontology (GO) annotation, statistics reporting, a graphical GO browsing interface, and microarray probe selection tools. In addition, Bio301 is equipped with statistical library comparison functions using multiple EST libraries based on GO annotations for mining meaningful biological information.