OpenMS - A Framework for Quantitative HPLC/MS-Based Proteomics

Reinert, Knut; Kohlbacher, Oliver; Gröpl, Clemens; Lange, Eva; Schulz-Trieglaff, Ole; Sturm, Marc; Pfeifer, Nico

doi:10.4230/DagSemProc.05471.13

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OpenMS - A Framework for Quantitative HPLC/MS-Based Proteomics

Authors Knut Reinert, Oliver Kohlbacher, Clemens Gröpl, Eva Lange, Ole Schulz-Trieglaff, Marc Sturm, Nico Pfeifer

Part of: Volume: Dagstuhl Seminar Proceedings, Volume 5471
Part of: Series: Dagstuhl Seminar Proceedings (DagSemProc)
License: Creative Commons Attribution 4.0 International license
Publication Date: 2006-09-18

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Document Identifiers

DOI: 10.4230/DagSemProc.05471.13
URN: urn:nbn:de:0030-drops-5463

Subject Classification

Keywords

Proteomics
C++
Differential expression

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Abstract

In the talk we describe the freely available software library OpenMS which is 
currently under development at the Freie UniversitÃƒÂ¤t Berlin and the 
Eberhardt-Karls UniversitÃƒÂ¤t TÃƒÂ¼bingen. We give an overview of the goals and 
problems in differential proteomics with HPLC and then describe in detail the 
implemented approaches for signal processing, peak detection and data 
reduction currently employed in OpenMS. After this we describe methods to 
identify the differential expression of peptides and propose strategies to avoid MS/MS identification of peptides of interest.  We give an overview of the
capabilities and design principles of OpenMS and demonstrate its ease of use. 
Finally we describe projects in which OpenMS will be or was already deployed 
and thereby demonstrate its versatility.

Cite As Get BibTex

Knut Reinert, Oliver Kohlbacher, Clemens Gröpl, Eva Lange, Ole Schulz-Trieglaff, Marc Sturm, and Nico Pfeifer. OpenMS - A Framework for Quantitative HPLC/MS-Based Proteomics. In Computational Proteomics. Dagstuhl Seminar Proceedings, Volume 5471, pp. 1-7, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2006) https://doi.org/10.4230/DagSemProc.05471.13

Author Details

Knut Reinert

Oliver Kohlbacher

Clemens Gröpl

Eva Lange

Ole Schulz-Trieglaff

Marc Sturm

Nico Pfeifer

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