Mascot Example Slides. MS/MS Database Search Example Data: BSAonespectra.mgf (one spectra) Database: bovine Fixed modifications: Carboxymethyl(C + 58.01)

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Presentation transcript:

Mascot Example Slides

MS/MS Database Search Example Data: BSAonespectra.mgf (one spectra) Database: bovine Fixed modifications: Carboxymethyl(C ) Varied modifications: Oxidatation(M) Peptide Mass Tolerance : 0.1 Da Fragment Mass Tolerance: 0.1 Da

MS2 mixture example Data: mixture10spectra.mgf Database: yeast Fixed modifications : Carbamidomethyl (C+57.02) Variable modifications : Oxidation (M) Peptide Mass Tolerance : 0.1 Da Fragment Mass Tolerance: 0.1 Da

MS1 PMF(peptide mass fingerprinting) Search Example Data: testms1.txt, 210 MS1 peaks Database: bovine Fixed modifications : Carboxymethyl (C) Variable modifications : Oxidation (M) Peptide Tolerance: 0.1 Da Monoisotopic mass Mass Value: Mr

Quantification Search Example Data: 18O_BSA_100fmol_1to5_01_ RAW.mgf Database: bovine Fixed modifications : Carbamidomethyl (C) Peptide Tolerance: 8 Da (required for O18 labeling) Fragment Tolerance: 0.2 Da Quantification Method: 18O corrected multiplex

Public Web Server m_select.html Class Data Download: Local Web Server Username: GPLS716 Password: GPLS716

Homework 1. Phosphorylation protein identifications: Data:BIG RAW.mgf Recommend parameters: Database: human. Variable Modification: Phospho(ST) Fixed modification: Carboamidomethyl(C). 2. O18 quantification analysis: Data: 18O_BSA_500fmol_1to5_ RAW.mgf. Questions: Contact Yunhu Wan, Phone number: