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The MetaProteomeAnalyzer : a powerful open-source software suite for metaproteomics data analysis and interpretation

(2015) JOURNAL OF PROTEOME RESEARCH. 14(3). p.1557-1565
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Bioinformatics: from nucleotids to networks (N2N)
Abstract
The enormous challenges of mass spectrometry-based metaproteomics are primarily related to the analysis and interpretation of the acquired data. This includes reliable identification of mass spectra and the meaningful integration of taxonomic and functional meta-information from samples containing hundreds of unknown species. To ease these difficulties, we developed a dedicated software suite, the MetaProteomeAnalyzer, an intuitive open-source tool for metaproteomics data analysis and interpretation, which includes multiple search engines and the feature to decrease data redundancy by grouping protein hits to so-called meta-proteins. We also designed a graph database back-end for the MetaProteomeAnalyzer to allow seamless analysis of results. The functionality of the MetaProteomeAnalyzer is demonstrated using a sample of a microbial community taken from a biogas plant.
Keywords
SEQUENCE, ECOLOGY, ALGORITHM, PEPTIDES, PROTEOMICS, SPECTROMETRY, IDENTIFICATION, PROTEIN INFERENCE, MICROBIAL COMMUNITIES, TANDEM MASS-SPECTRA, microbial communities, software, metaproteomics, mass spectrometry, environmental proteomics, bioinformatics

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Citation

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MLA
Muth, Thilo, Alexander Behne, Robert Heyer, et al. “The MetaProteomeAnalyzer : a Powerful Open-source Software Suite for Metaproteomics Data Analysis and Interpretation.” JOURNAL OF PROTEOME RESEARCH 14.3 (2015): 1557–1565. Print.
APA
Muth, T., Behne, A., Heyer, R., Kohrs, F., Benndorf, D., Hoffmann, M., Lehteva, M., et al. (2015). The MetaProteomeAnalyzer : a powerful open-source software suite for metaproteomics data analysis and interpretation. JOURNAL OF PROTEOME RESEARCH, 14(3), 1557–1565.
Chicago author-date
Muth, Thilo, Alexander Behne, Robert Heyer, Fabian Kohrs, Dirk Benndorf, Marcus Hoffmann, Miro Lehteva, Udo Reichl, Lennart Martens, and Erdmann Rapp. 2015. “The MetaProteomeAnalyzer : a Powerful Open-source Software Suite for Metaproteomics Data Analysis and Interpretation.” Journal of Proteome Research 14 (3): 1557–1565.
Chicago author-date (all authors)
Muth, Thilo, Alexander Behne, Robert Heyer, Fabian Kohrs, Dirk Benndorf, Marcus Hoffmann, Miro Lehteva, Udo Reichl, Lennart Martens, and Erdmann Rapp. 2015. “The MetaProteomeAnalyzer : a Powerful Open-source Software Suite for Metaproteomics Data Analysis and Interpretation.” Journal of Proteome Research 14 (3): 1557–1565.
Vancouver
1.
Muth T, Behne A, Heyer R, Kohrs F, Benndorf D, Hoffmann M, et al. The MetaProteomeAnalyzer : a powerful open-source software suite for metaproteomics data analysis and interpretation. JOURNAL OF PROTEOME RESEARCH. 2015;14(3):1557–65.
IEEE
[1]
T. Muth et al., “The MetaProteomeAnalyzer : a powerful open-source software suite for metaproteomics data analysis and interpretation,” JOURNAL OF PROTEOME RESEARCH, vol. 14, no. 3, pp. 1557–1565, 2015.
@article{6896502,
  abstract     = {The enormous challenges of mass spectrometry-based metaproteomics are primarily related to the analysis and interpretation of the acquired data. This includes reliable identification of mass spectra and the meaningful integration of taxonomic and functional meta-information from samples containing hundreds of unknown species. To ease these difficulties, we developed a dedicated software suite, the MetaProteomeAnalyzer, an intuitive open-source tool for metaproteomics data analysis and interpretation, which includes multiple search engines and the feature to decrease data redundancy by grouping protein hits to so-called meta-proteins. We also designed a graph database back-end for the MetaProteomeAnalyzer to allow seamless analysis of results. The functionality of the MetaProteomeAnalyzer is demonstrated using a sample of a microbial community taken from a biogas plant.},
  author       = {Muth, Thilo and Behne, Alexander and Heyer, Robert and Kohrs, Fabian and Benndorf, Dirk and Hoffmann, Marcus and Lehteva, Miro and Reichl, Udo and Martens, Lennart and Rapp, Erdmann},
  issn         = {1535-3893},
  journal      = {JOURNAL OF PROTEOME RESEARCH},
  keywords     = {SEQUENCE,ECOLOGY,ALGORITHM,PEPTIDES,PROTEOMICS,SPECTROMETRY,IDENTIFICATION,PROTEIN INFERENCE,MICROBIAL COMMUNITIES,TANDEM MASS-SPECTRA,microbial communities,software,metaproteomics,mass spectrometry,environmental proteomics,bioinformatics},
  language     = {eng},
  number       = {3},
  pages        = {1557--1565},
  title        = {The MetaProteomeAnalyzer : a powerful open-source software suite for metaproteomics data analysis and interpretation},
  url          = {http://dx.doi.org/10.1021/pr501246w},
  volume       = {14},
  year         = {2015},
}

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