Could an mzXML file work on proteome discoverer 2.0 and MaxQuant 1.5.2.8 ?

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Peter G Hains

HI Eric,

it all depends on what you actually want to do with the MS data? Is it simple peptide ID, or are you interested in MS1 quant? Since you have ProteinLynx GS, why don't you just use that?

I would expect PD 2.0 to work with mzXML files. I also believe the newer versions of MaxQuant work with mzXML files, but there are others around that can confirm that.

Peter

Biswapriya Biswavas Misra

Please use Proteowizard's MS Convert Tool for free: http://proteowizard.sourceforge.net/downloads.shtml for converting almost any file formats to software readable .mgf or .mzXML or .mzML formats which then can be used for all kind of down stream analyse. Another tool which can do the same is Mass++ (http://www.shimadzu.co.jp/aboutus/ms_r/archive/en/index.html). They are all free and windows based.

Hope it helps. Thanks, Biswa