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PIPELINE PILOT

Empower your research team with a flexible scientific platform that drives efficiency, collaboration and innovation.

Mass Spectrometry for Proteomics Collection

The Mass Spectrometry for Proteomics Collection offers a comprehensive set of components and example protocols to create and automate customized proteomics and metabolomics workflows. The protocols capture your processing steps and flow your experimental data through components to read, write, visualize, manipulate, analyze, compare, and publish results. The data models support quick processing of large files and carry detailed information at multiple levels. Harnessing the power of the Pipeline Pilot graphical protocol-building capabilities, complex data analysis procedures, such as peptide and protein identification and differential profiling, can be easily constructed without the need to develop code.

Coupled with power of the Sequence Analysis and Gene Expression Collections, your mass spec data can be easily cross-validated and compared to other experiments for biomarker identification and verification.

With the Mass Spectrometry Collection you can:

  • Read in with .RAW*, .wiff, SEQUEST DTA, ANDI (netCDF), Mascot MGF, or mzXML files
  • View your data with interactive chromatograms, 2D mass spec run charts, scan charts, feature peak charts, retention time drift charts, fragmentograms, peptide and protein viewers with drill down, and heat maps
  • Perform protein identification using X!Tandem to extract peptides and mapped proteins
  • Use XCMS to extract, identify and align feature peaks for differential profiling
  • Publish results in an interactive manner than can be deployed via web port with advanced reporting features
  • Calculate ASAPRatio of protein abundance from 2 tagged samples

Read the Mass Spectrometry for Proteomics Collection Datasheet

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