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Help with Mascot data

Help with Mascot data - Mass Spectrometry Forum

Help with Mascot data - Discuss and post questions about LC-MS, Q-STAR, MALDI-TOF, and other Mass Spectrometry Questions in the Mass Spec Forum.


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Old 02-02-2009, 03:24 PM
Pipette Filler
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Default Help with Mascot data



Why do I get a bad P value when the program gave a peptide list that exactly matches my protein of interest? 12 petides each with 100% homology.The program also fails to ID the protein calling it "unnamed protein product (Mus musculas)". These are highly conserved proteins and BLASTing the petides gives a consensus among many species but oddly for the mouse it only gives a clone number. The protein was searched with a mouse data base. I don't know if that has anything to do with the problem I'm just throwing out things that are weird.
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