Was Mascot able to identify labeled peptides? Did you explore the ASAPRatio results and the quantitated chromatograms using the interface? (follow the link in the pepXML viewer).
Also, please make sure that you are following the TPP-based workflow for analyzing Mascot results, as outlined in this message: http://groups.google.com/group/spctools-discuss/browse_thread/thread/75256f72eae74490/724ee0bde051df6b?hl=en&lnk=gst&q=F0123456#724ee0bde051df6b Cheers, --Luis On Mon, Aug 15, 2011 at 8:20 PM, 钟传奇 <[email protected]> wrote: > Hi,everyone, > I used SILAC(lys+8, arg+10) to label my cell lines, and used TripleTOF > 5600 to analyze my samples. After converting raw data to .mgf files, > which were searched by Mascot, I used PeptideProphet to analyze > pep.xml files. I checked the resulting interact.pep.xml files, which > seemed normal. After running ASAPRatio, I found ASAPRation results > show N/A for every peptide. I don't know what is wrong, because I > followed TPP Demo2009. > By the way, the version of TPP I used is 4.5. > Thanks. > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to [email protected]. > To unsubscribe from this group, send email to > [email protected]. > For more options, visit this group at > http://groups.google.com/group/spctools-discuss?hl=en. > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
