LC-MS data processing with MAVEN: A metabolomic analysis and visualization engine

Michelle F. Clasquin, Eugene Melamud, Joshua D. Rabinowitz

Research output: Contribution to journalArticlepeer-review

341 Scopus citations


MAVEN is an open-source software program for interactive processing of LC-MS-based metabolomics data. MAVEN enables rapid and reliable metabolite quantitation from multiple reaction monitoring data or high-resolution full-scan mass spectrometry data. It automatically detects and reports peak intensities for isotope-labeled metabolites. Menu-driven, click-based navigation allows visualization of raw and analyzed data. Here we provide a User Guide for MAVEN. Step-by-step instructions are provided for data import, peak alignment across samples, identification of metabolites that differ strongly between biological conditions, quantitation and visualization of isotope-labeling patterns, and export of tables of metabolite-specific peak intensities. Together, these instructions describe a workflow that allows efficient processing of raw LC-MS data into a form ready for biological analysis.

Original languageEnglish (US)
Article number14.11
JournalCurrent Protocols in Bioinformatics
Issue numberSUPPL.37
StatePublished - Mar 2012

All Science Journal Classification (ASJC) codes

  • Structural Biology
  • Biochemistry


  • Kinetic flux profiling
  • Liquid chromatography-mass spectrometry
  • Metabolic flux analysis
  • Metabolomics
  • Pathway visualization and mapping
  • Stable isotope labeling


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