MaxQuant

MaxQuant is a tool for the analysis of large mass-spectrometric data sets. The MaxQuant algorithm can manage large high-resolution data sets, uses many labeling procedures, and label-free quantification. MaxQuant has a viewer module to visualize 3-D graphical models. See also Perseus framework for statistical analysis of MaxQuant output.

Topic

Proteomics;Proteomics experiment;Statistics and probability

Detail

  • Operation: Imputation;Visualisation;Protein quantification;Statistical calculation;Standardisation and normalisation;Heat map generation;Clustering;Principal component plotting

  • Software interface: Graphical user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: 1.6.17.0

  • Credit: The European Union’s Horizon 2020 Research and Innovation Programme

  • Input: Peptide identification CSV, TSV, SEQUEST .out file , xlsx

  • Output: CSV; JPG: PNG

  • Contact: cox@biochem.mpg.de | http://coxdocs.org/doku.php?id=maxquant:common:contact

  • Collection: -

  • Maturity: Mature

Publications

  • MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification.
  • Cox J, Mann M (2008). MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol 26(12): 1367-72.
  • https://doi.org/10.1038/nbt.1511
  • PMID: 19029910
  • PMC: None
  • The MaxQuant computational platform for mass spectrometry-based shotgun proteomics.
  • Tyanova S, Temu T, Cox J (2016). The MaxQuant computational platform for mass spectrometry-based shotgun proteomics. Nat Protoc 11(12): 2301-2319.
  • https://doi.org/10.1038/nprot.2016.136
  • PMID: 27809316
  • PMC: None
  • Analysis of high accuracy, quantitative proteomics data in the MaxQB database.
  • Schaab C, Geiger T, Stoehr G, Cox J, Mann M (2012). Analysis of high accuracy, quantitative proteomics data in the MaxQB database. Mol Cell Proteomics 11(3): M111.014068.
  • https://doi.org/10.1074/mcp.M111.014068
  • PMID: 22301388
  • PMC: PMC3316731
  • Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ.
  • Cox J, Hein MY, Luber CA, Paron I, Nagaraj N, et al. (2014). Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ. Mol Cell Proteomics 13(9): 2513-26.
  • https://doi.org/10.1074/mcp.M113.031591
  • PMID: 24942700
  • PMC: PMC4159666

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