Scientific workflow management in proteomics

Mol Cell Proteomics. 2012 Jul;11(7):M111.010595. doi: 10.1074/mcp.M111.010595. Epub 2012 Mar 12.


Data processing in proteomics can be a challenging endeavor, requiring extensive knowledge of many different software packages, all with different algorithms, data format requirements, and user interfaces. In this article we describe the integration of a number of existing programs and tools in Taverna Workbench, a scientific workflow manager currently being developed in the bioinformatics community. We demonstrate how a workflow manager provides a single, visually clear and intuitive interface to complex data analysis tasks in proteomics, from raw mass spectrometry data to protein identifications and beyond.

MeSH terms

  • Algorithms
  • Chromatography, Liquid
  • Proteins / analysis*
  • Proteomics
  • Tandem Mass Spectrometry
  • User-Computer Interface*
  • Workflow


  • Proteins