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Bioinformatics Advance Access published online on March 24, 2009
Bioinformatics, 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}

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

*To whom correspondence should be addressed. Dr. Yongjian Guo, E-mail: guoyo{at}mail.nih.gov


  Abstract

Motivation: Understanding gene regulation and expression is key to the advancement of biology. EST sequence assembly and analysis provide unique benefits in this regard. We have developed a stand-alone application, dCAS, which performs automated EST cleaning, clustering, assembly and annotation on a desktop computer. Com-pared with other available tools, dCAS provides a more convenient and user-friendly solution to biologists for extracting biological mean-ing from sequence data.

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

Contact: Dr. Yongjian Guo, Bioinformatics and Computational Bio-sciences Branch, 10401 Fernwood Road, Room 2025, Bethesda, MD 20892. guoyo{at}mail.nih.gov

Associate Editor: Prof. John Quackenbush

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

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

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