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MPA Portable : a stand-alone software package for analyzing metaproteome samples on the go

Thilo Muth UGent, Fabian Kohrs, Robert Heyer, Dirk Benndorf, Erdmann Rapp, Udo Reichl, Lennart Martens UGent and Bernhard Y Renard (2017) ANALYTICAL CHEMISTRY. 90(1). p.685-689
abstract
Metaproteomics, the mass spectrometry-based analysis of proteins from multispecies samples faces severe challenges concerning data analysis and results interpretation. To overcome these shortcomings, we here introduce the MetaProteomeAnalyzer (MPA) Portable software. In contrast to, the original server-based MPA application, this newly developed tool no longer requires computational expertise for installation and is now independent of any relational database system. In addition, MPA Portable now supports state-of-theart database search engines and a convenient command line interface for high-performance data processing tasks. While search engine results can easily be combined to increase the protein identification yield, an additional two-step workflow is implemented to provide sufficient analysis resolution for further postprocessing steps, such as protein grouping as well as taxonomic and functional annotation. Our new application has been developed with a focus on intuitive usability, adherence to data standards, and adaptation to Web-based workflow platforms. The open source software package can be found at https://github.com/compomics/meta-proteome-analyzer.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
DATABASE SEARCH TOOL, COMMUNITY PROTEOMICS, GUT MICROBIOTA, PROTEINS, DISEASE, EXPRESSION, PEPTIDES, OBESITY, GALAXY, SUITE
journal title
ANALYTICAL CHEMISTRY
Anal. Chem.
volume
90
issue
1
pages
685 - 689
Web of Science type
Article
Web of Science id
000419419200040
ISSN
0003-2700
1520-6882
DOI
10.1021/acs.analchem.7b03544
language
English
UGent publication?
yes
classification
A1
copyright statement
I have retained and own the full copyright for this publication
id
8546728
handle
http://hdl.handle.net/1854/LU-8546728
date created
2018-01-30 12:16:28
date last changed
2018-02-23 11:45:27
@article{8546728,
  abstract     = {Metaproteomics, the mass spectrometry-based analysis of proteins from multispecies samples faces severe challenges concerning data analysis and results interpretation. To overcome these shortcomings, we here introduce the MetaProteomeAnalyzer (MPA) Portable software. In contrast to, the original server-based MPA application, this newly developed tool no longer requires computational expertise for installation and is now independent of any relational database system. In addition, MPA Portable now supports state-of-theart database search engines and a convenient command line interface for high-performance data processing tasks. While search engine results can easily be combined to increase the protein identification yield, an additional two-step workflow is implemented to provide sufficient analysis resolution for further postprocessing steps, such as protein grouping as well as taxonomic and functional annotation. Our new application has been developed with a focus on intuitive usability, adherence to data standards, and adaptation to Web-based workflow platforms. The open source software package can be found at https://github.com/compomics/meta-proteome-analyzer.},
  author       = {Muth, Thilo and Kohrs, Fabian and Heyer, Robert and Benndorf, Dirk and Rapp, Erdmann and Reichl, Udo and Martens, Lennart and Renard, Bernhard Y},
  issn         = {0003-2700},
  journal      = {ANALYTICAL CHEMISTRY},
  keyword      = {DATABASE SEARCH TOOL,COMMUNITY PROTEOMICS,GUT MICROBIOTA,PROTEINS,DISEASE,EXPRESSION,PEPTIDES,OBESITY,GALAXY,SUITE},
  language     = {eng},
  number       = {1},
  pages        = {685--689},
  title        = {MPA Portable : a stand-alone software package for analyzing metaproteome samples on the go},
  url          = {http://dx.doi.org/10.1021/acs.analchem.7b03544},
  volume       = {90},
  year         = {2017},
}

Chicago
Muth, Thilo, Fabian Kohrs, Robert Heyer, Dirk Benndorf, Erdmann Rapp, Udo Reichl, Lennart Martens, and Bernhard Y Renard. 2017. “MPA Portable : a Stand-alone Software Package for Analyzing Metaproteome Samples on the Go.” Analytical Chemistry 90 (1): 685–689.
APA
Muth, T., Kohrs, F., Heyer, R., Benndorf, D., Rapp, E., Reichl, U., Martens, L., et al. (2017). MPA Portable : a stand-alone software package for analyzing metaproteome samples on the go. ANALYTICAL CHEMISTRY, 90(1), 685–689.
Vancouver
1.
Muth T, Kohrs F, Heyer R, Benndorf D, Rapp E, Reichl U, et al. MPA Portable : a stand-alone software package for analyzing metaproteome samples on the go. ANALYTICAL CHEMISTRY. 2017;90(1):685–9.
MLA
Muth, Thilo, Fabian Kohrs, Robert Heyer, et al. “MPA Portable : a Stand-alone Software Package for Analyzing Metaproteome Samples on the Go.” ANALYTICAL CHEMISTRY 90.1 (2017): 685–689. Print.