Journal Article

FrameDP: sensitive peptide detection on noisy matured sequences

Jérôme Gouzy, Sébastien Carrere and Thomas Schiex

in Bioinformatics

Volume 25, issue 5, pages 670-671
Published in print March 2009 | ISSN: 1367-4803
Published online January 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp024

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Summary: Transcriptome sequencing represents a fundamental source of information for genome-wide studies and transcriptome analysis and will become increasingly important for expression analysis as new sequencing technologies takes over array technology. The identification of the protein-coding region in transcript sequences is a prerequisite for systematic amino acid-level analysis and more specifically for domain identification. In this article, we present FrameDP, a self-training integrative pipeline for predicting CDS in transcripts which can adapt itself to different levels of sequence qualities.

Availability: FrameDP for Linux (web-server and underlying pipeline) is available at {{http://iant.toulouse.inra.fr/FrameDP}} for direct use or a standalone installation.

Contact: thomas.schiex@toulouse.inra.fr

Journal Article.  1338 words. 

Subjects: Bioinformatics and Computational Biology

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