Central Proteomics Facilities Pipeline Icon

Central Proteomics Facilities Pipeline

A data analysis pipeline for shotgun mass-spectrometry proteomics.

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CPFP provides a pipeline for the analysis of MS/MS proteomic data, targeted at the needs of central proteomics facilities.

Please view the project website at cpfp.sf.net for full details and access to a demonstration server.

Contact david.trudgian@utsouthwestern.edu with any questions.

Central Proteomics Facilities Pipeline Web Site



  • Web based proteomics pipeline targetted at needs of central proteomics facilities
  • MS/MS Search with Mascot, X!Tandem, OMSSA in a single step
  • Peptide and Protein validation using PeptideProphet & ProteinProphet
  • Supports iTRAQ, SILAC, and SINQ Spectral Index label-free quantitation

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