1 / 7

Mascot Example Slides

Mascot Example Slides. MS/MS Database Search Example. Data: BSAonespectra.mgf (one spectra) Database: bovine Fixed modifications: Carboxymethyl(C + 58.01) Varied modifications: Oxidatation(M) Peptide Mass Tolerance : 0.1 Da Fragment Mass Tolerance: 0.1 Da. MS2 mixture example.

stacey-joyner
Télécharger la présentation

Mascot Example Slides

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Mascot Example Slides

  2. MS/MS Database Search Example • Data: BSAonespectra.mgf (one spectra) • Database: bovine • Fixed modifications: Carboxymethyl(C + 58.01) • Varied modifications: Oxidatation(M) • Peptide Mass Tolerance : 0.1 Da • Fragment Mass Tolerance: 0.1 Da

  3. 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

  4. 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

  5. Quantification Search Example • Data: 18O_BSA_100fmol_1to5_01_071018.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

  6. Public Web Serverhttp://www.matrixscience.com/search_form_select.html Class Data Download:http://134.192.153.220/GPLS716Local Web Serverhttp://134.192.153.220/mascotUsername: GPLS716Password: GPLS716

  7. Homework 1. Phosphorylation protein identifications: Data:BIG3021307.RAW.mgf Recommend parameters: Database: human. Variable Modification: Phospho(ST) Fixed modification: Carboamidomethyl(C). 2. O18 quantification analysis: Data: 18O_BSA_500fmol_1to5_071013.RAW.mgf. Questions: Contact Yunhu Wan, email: ywan@som.umaryland.edu Phone number: 8-2031

More Related