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Bioinformatics Advance Access originally published online on March 24, 2009
Bioinformatics 2009 25(9):1195-1196; doi:10.1093/bioinformatics/btp129
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© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

dCAS: a desktop application for cDNA sequence annotation

Yongjian Guo 1,*, Jose M. C. Ribeiro 2, Jennifer M. Anderson 2 and Stephan Bour 1,{dagger}

1Bioinformatics and Computational Biosciences Branch, Office of Cyber Infrastructure and Computational Biology and 2Laboratory of Malaria and Vector Research, National Institute of Allergy and Infectious Diseases, Bethesda, MD 20892, USA

*To whom correspondence should be addressed.


  Abstract

Motivation: Understanding gene regulation and expression is the key to the advancement of biology. EST sequence assembly and analysis provide unique benefits in this regard. We have developed a standalone application, dCAS (Desktop cDNA Annotation System), which performs automated EST cleaning, clustering, assembly and annotation on a desktop computer. Compared with other available tools, dCAS provides a more convenient and user-friendly solution to biologists for extracting biological meaning from sequence data.

Availability: The dCAS package is distributed freely. A cross-platform installer and associated sequence databases can be downloaded at: http://exon.niaid.nih.gov/applications.html

Contact: guoyo{at}mail.nih.gov

{dagger}Present address: Center for Biomedical Informatics National Heart Lung and Blood Institute 6705 Rockledge Dr., Bethesda, MD 20892, USA.

Associate Editor: John Quackenbush

Received on January 12, 2009; revised on February 27, 2009; accepted on March 1, 2009

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