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Bioinformatics Advance Access originally published online on January 24, 2006
Bioinformatics 2006 22(5):632-633; doi:10.1093/bioinformatics/btk015
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

ProteomeCommons.org JAF: reference information and tools for proteomics

J. A. Falkner , J. W. Falkner and P. C. Andrews *

Department Biological Chemistry, University of Michigan Ann Arbor, MI 48104, USA

*To whom correspondence should be addressed.

Summary: Analysis of proteomics data, specifically mass spectrometry data, commonly relies on libraries of known information such as atomic masses, known stable isotopes, atomic compositions of amino acids, observed modifications of known amino acids and ion masses that directly correspond to known amino acid sequences. The Java Analysis Framework (JAF) for proteomics provides a freely usable, open-source library of Java code that abstracts all of the aforementioned data, enabling more rapid development of proteomics tools. The JAF also includes several user tools that can be run directly from a web browser.

Availability: The current version and an archive of all older versions of the Java Analysis Framework for Proteomics is freely available, including complete source-code, at http://www.proteomecommons.org/current/511/

Contact: jfalkner{at}umich.edu

Received on October 30, 2005; revised on December 5, 2005; accepted on December 15, 2005

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J. A. Falkner, J. W. Falkner, and P. C. Andrews
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[Abstract] [Full Text] [PDF]


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