Proteomic Software for Mass Spec Data Analysis

Fast, powerful mass spectrometers routinely generate large data sets for proteomics analysis. Our proteomic software can help simplify statistical analysis of proteomics data and add biological meaning even in the most complex biological systems experiments. Proteomic analyses involve not only identification of the peptide or protein and its posttranslational modifications, but also several statistical analyses that help extrapolate the biological significance of the proteomics data. Our suite of proteomics software products are specifically designed to mine complex, high-resolution accurate-mass (HRAM) Orbitrap data, and to convert it to meaningful results.

Comprehensive protein identification, characterization, and quantitation

Thermo Scientific Proteome Discoverer software helps you identify and quantify proteins in complex biological samples.

Recommended for the following workflows:

• Iterative search strategies
• Multi-search engine comparison
• TMT SPS MS3
• Glycopeptide identification and quantification
• Phosphopeptide ID and quantification
• Top-down proteomics
• Cross-linking

Proteoform identification

Thermo Scientific ProsightPD software has been enhanced to add support for middle-down and bottom-up experiments, making it an all-around tool for identification and characterization of both intact proteins and peptides.

Recommended for the following workflows:

• Top-down protein MS/MS ID
• Elucidation of unknown PTMs
• Protein database curation

Quantitate and validate peptide identity

Skyline software  is widely adopted by the proteomics community as the de facto platform for targeted quantitation data analysis. The SureQuant Targeted Mass Spec Assay kits are provided with ready-to-use Skyline processing and analysis templates to enable routine workflow execution without tedious parameter and data pipeline optimization.