Quantification of protein levels from mass-spectrometry experiments

This workflow performs a quantification of proteins from (label-free) mass-spectrometry data. The final results are relative comparisons of protein levels across conditions to check for significant changes.
It uses components for the OpenMS plugin for compactness (green) and provides interactive configuration as well as exploration of the results using the R packages PTXQC, MSstats together with JavaScript nodes (blue).

External resources

• OpenMS
• Data
• Original publication
• Experimental design documentation
• OpenMS KNIME tutorial