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Abstract
Mass spectrometry is a fundamental tool for discovery and analysis in the life sciences. With the rapid advances in mass spectrometry technology and methods, it has become imperative to provide a standard output format for mass spectrometry data that will facilitate data sharing and analysis. Initially, the efforts to develop a standard format for mass spectrometry data resulted in multiple formats, each designed with a different underlying philosophy. To resolve the issues associated with having multiple formats, vendors, researchers, and software developers convened under the banner of the HUPO PSI to develop a single standard. The new data format incorporated many of the desirable technical attributes from the previous data formats, while adding a number of improvements, including features such as a controlled vocabulary with validation tools to ensure consistent usage of the format, improved support for selected reaction monitoring data, and immediately available implementations to facilitate rapid adoption by the community. The resulting standard data format, mzML, is a well tested open-source format for mass spectrometer output files that can be readily utilized by the community and easily adapted for incremental advances in mass spectrometry technology.
Keywords
SOFTWARE, GUIDELINES, PROJECT, PROTEIN, OUTPUT, PRIDE, REPOSITORIES, FORMAT, PEPTIDE IDENTIFICATION, TRANS-PROTEOMIC PIPELINE

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Citation

Please use this url to cite or link to this publication:

MLA
Martens, Lennart, Matthew Chambers, Marc Sturm, et al. “mzML: a Community Standard for Mass Spectrometry Data.” MOLECULAR & CELLULAR PROTEOMICS 10.1 (2011): n. pag. Print.
APA
Martens, Lennart, Chambers, M., Sturm, M., Kessner, D., Levander, F., Shofstahl, J., Tang, W. H., et al. (2011). mzML: a community standard for mass spectrometry data. MOLECULAR & CELLULAR PROTEOMICS, 10(1).
Chicago author-date
Martens, Lennart, Matthew Chambers, Marc Sturm, Darren Kessner, Fredrik Levander, Jim Shofstahl, Wilfred H Tang, et al. 2011. “mzML: a Community Standard for Mass Spectrometry Data.” Molecular & Cellular Proteomics 10 (1).
Chicago author-date (all authors)
Martens, Lennart, Matthew Chambers, Marc Sturm, Darren Kessner, Fredrik Levander, Jim Shofstahl, Wilfred H Tang, Andreas Ropp, Steffen Neumann, Angel D Pizarro, Luisa Montecchi-Palazzi, Natalie Tasman, Mike Coleman, Florian Reisinger, Puneet Souda, Henning Hermjakob, Pierre-Alain Binz, and Eric W Deutsch. 2011. “mzML: a Community Standard for Mass Spectrometry Data.” Molecular & Cellular Proteomics 10 (1).
Vancouver
1.
Martens L, Chambers M, Sturm M, Kessner D, Levander F, Shofstahl J, et al. mzML: a community standard for mass spectrometry data. MOLECULAR & CELLULAR PROTEOMICS. 2011;10(1).
IEEE
[1]
L. Martens et al., “mzML: a community standard for mass spectrometry data,” MOLECULAR & CELLULAR PROTEOMICS, vol. 10, no. 1, 2011.
@article{1208221,
  abstract     = {{Mass spectrometry is a fundamental tool for discovery and analysis in the life sciences. With the rapid advances in mass spectrometry technology and methods, it has become imperative to provide a standard output format for mass spectrometry data that will facilitate data sharing and analysis. Initially, the efforts to develop a standard format for mass spectrometry data resulted in multiple formats, each designed with a different underlying philosophy. To resolve the issues associated with having multiple formats, vendors, researchers, and software developers convened under the banner of the HUPO PSI to develop a single standard. The new data format incorporated many of the desirable technical attributes from the previous data formats, while adding a number of improvements, including features such as a controlled vocabulary with validation tools to ensure consistent usage of the format, improved support for selected reaction monitoring data, and immediately available implementations to facilitate rapid adoption by the community. The resulting standard data format, mzML, is a well tested open-source format for mass spectrometer output files that can be readily utilized by the community and easily adapted for incremental advances in mass spectrometry technology.}},
  author       = {{Martens, Lennart and Chambers, Matthew and Sturm, Marc and Kessner, Darren and Levander, Fredrik and Shofstahl, Jim and Tang, Wilfred H and Ropp, Andreas and Neumann, Steffen and Pizarro, Angel D and Montecchi-Palazzi, Luisa and Tasman, Natalie and Coleman, Mike and Reisinger, Florian and Souda, Puneet and Hermjakob, Henning and Binz, Pierre-Alain and Deutsch, Eric W}},
  issn         = {{1535-9476}},
  journal      = {{MOLECULAR & CELLULAR PROTEOMICS}},
  keywords     = {{SOFTWARE,GUIDELINES,PROJECT,PROTEIN,OUTPUT,PRIDE,REPOSITORIES,FORMAT,PEPTIDE IDENTIFICATION,TRANS-PROTEOMIC PIPELINE}},
  language     = {{eng}},
  number       = {{1}},
  pages        = {{7}},
  title        = {{mzML: a community standard for mass spectrometry data}},
  url          = {{http://dx.doi.org/10.1074/mcp.R110.000133}},
  volume       = {{10}},
  year         = {{2011}},
}

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