Analysis Tools




ProHits LIMS V4.0


Analysis Tools integrated with ProHits


Mass spectrometry data conversion

  ProteoWizard


Mass spectrometry search engines

  Comet
  MSGF+
  X!Tandem
  Mascot


Mass spectrometry data analysis

  Trans-Proteomics Pipeline (TPP), including iProphet
  SAINT


DIA-SWATH quantitation tools

  DIA-Umpire
  MSPLIT-DIA
  mapDIA


ProHits-compatible Repositories and Tools

Mass spectrometry raw file storage

  MassIVE


Protein interaction repositories

  BioGRID
  iRefIndex
  IntAct


Data visualization

  ProHits-viz

  Cytoscape-Web


AP-MS Control Data Repository

  CRAPome