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OpenMS: a flexible open-source software platform for mass spectrometry data analysis.

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Date
2016-08
ICR Author
Choudhary, Jyoti
Author
Röst, HL
Sachsenberg, T
Aiche, S
Bielow, C
Weisser, H
Aicheler, F
Andreotti, S
Ehrlich, H-C
Gutenbrunner, P
Kenar, E
Liang, X
Nahnsen, S
Nilse, L
Pfeuffer, J
Rosenberger, G
Rurik, M
Schmitt, U
Veit, J
Walzer, M
Wojnar, D
Wolski, WE
Schilling, O
Choudhary, JS
Malmström, L
Aebersold, R
Reinert, K
Kohlbacher, O
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Type
Journal Article
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Abstract
High-resolution mass spectrometry (MS) has become an important tool in the life sciences, contributing to the diagnosis and understanding of human diseases, elucidating biomolecular structural information and characterizing cellular signaling networks. However, the rapid growth in the volume and complexity of MS data makes transparent, accurate and reproducible analysis difficult. We present OpenMS 2.0 (http://www.openms.de), a robust, open-source, cross-platform software specifically designed for the flexible and reproducible analysis of high-throughput MS data. The extensible OpenMS software implements common mass spectrometric data processing tasks through a well-defined application programming interface in C++ and Python and through standardized open data formats. OpenMS additionally provides a set of 185 tools and ready-made workflows for common mass spectrometric data processing tasks, which enable users to perform complex quantitative mass spectrometric analyses with ease.
URI
https://repository.icr.ac.uk/handle/internal/4173
DOI
https://doi.org/10.1038/nmeth.3959
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Subject
Humans
Blood Proteins
Proteomics
Computational Biology
Aging
Software
Mass Spectrometry
Workflow
Molecular Sequence Annotation
Proteogenomics
Electronic Data Processing
Language
eng
Date accepted
2016-06-27
License start date
2016-08
Citation
Nature methods, 2016, 13 (9), pp. 741 - 748

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