PhosphoRS using isobar
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imees • 0
Last seen 3.1 years ago

I have analysed a label-free phosphoproteomics dataset with Progenesis QI. I am now trying to filter out my phosphopeptides with the PhosphoRS algorithm to only keep the phosphopeptides with high confidence for the phosphosite localisation (>75%) for further analysis. I have an .mgf file and .mzIdentML file from the Progenesis analysis. I am trying to find a script to run the PhosphoRS algorithm on R. The isobar package has that function but I'm unsure if it works for label-free phosphoproteomics as well. Moreover, I can't find the full script to merge my .mgf and .mzIdentML files in order to create the PhosphoRS input file. Any advice on how to run this analysis would be great. I am a beginner on R. Thanks!

Isaline Mees PhD student, Florey Institute of Neurosciences Melbourne, Australia

isobar phosphors phosphoproteomics label-free phosphopeptides • 270 views

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