Skip Navigation


Bioinformatics Advance Access originally published online on January 2, 2008
Bioinformatics 2008 24(4):591-593; doi:10.1093/bioinformatics/btm631
This Article
Right arrow Full Text
Right arrow Full Text (Print PDF)
Right arrow All Versions of this Article:
24/4/591    most recent
btm631v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Böcker, S.
Right arrow Articles by Sudek, H.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Böcker, S.
Right arrow Articles by Sudek, H.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

DECOMP—from interpreting Mass Spectrometry peaks to solving the Money Changing Problem

Sebastian Böcker 1,*, Zsuzsanna Lipták 2, Marcel Martin 2, Anton Pervukhin 1,{dagger} and Henner Sudek 2

1Lehrstuhl Bioinformatik, Friedrich-Schiller-Universität Jena, Ernst-Abbe-Platz 2, 07743 Jena and 2AG Genominformatik, Technische Fakultät, Universität Bielefeld, PF 100 131, 33501 Bielefeld, Germany

{dagger}To whom correspondence should be addressed.


  Abstract

Summary: We introduce DECOMP, a tool that computes the sum formula of all molecules whose mass equals the input mass. This problem arises frequently in biochemistry and mass spectrometry (MS), when we know the molecular mass of a protein, DNA or metabolite fragment but have no other information. A closely related problem is known as the Money Changing Problem (MCP), where all masses are positive integers. Recently, efficient algorithms have been developed for the MCP, in which DECOMP applies to real-valued MS data. The excellent performance of this method on proteomic and metabolomic MS data has recently been demonstrated. DECOMP has an easy-to-use graphical interface, which caters for both types of users: those interested in solving MCP instances and those submitting MS data.

Availability: DECOMP is freely accessible at http://bibiserv.techfak.uni-bielefeld.de/decomp/

Contact: anton.pervukhin{at}minet.uni-jena.de

*Authors are listed alphabetically.

Associate Editor: John Quackenbush

Received on August 13, 2007; revised on November 16, 2007; accepted on December 17, 2007

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.