SIB Bioinformatics Workshops

Protein Identification by Mass Spectrometry

Friday June 22, 2007

The goal of this course is to give some basic theoretical and practical knowledge on the mass spectrometry (MS) techniques used in proteomics to identify proteins in simple and complex mixtures. The course will cover the following main subjects: Fundamental concepts of mass spectrometry (MS) of peptides and proteins Strategies for protein identification with MS data: theory, concepts, variants Database searches with MS data: practical examples and exercises Validation and interpretation of results The course will be structured with alternating theory and exercise periods. All participants will learn how to analyse simple mass spectrometry data and how to use an online tool for protein identification.  If time permits, examples of typical proteomics workflows will be presented. Note: participants should bring a pocket calculator

 

Teachers: Manfredo Quadroni (UNIL, PAFL) Patrice Waridel (UNIL, PAFL) Mara Colzani (UNIL, PAFL)

 

Location: reading room of the Genopode Building (Quartier Sorge, 1015 Dorigny)

 

 

Time	Topic	Speakers
08h45 -10h00	Protein Identification by MS part I (theory and exercises)	M. Quadroni P. Waridel M. Colzani
10h30 - 12h15	Protein Identification by MS part II (theory and exercises)	M. Quadroni P. Waridel M. Colzani
13h00 - 15h45	Protein Identification by MS part III (theory and exercises)	M. Quadroni P. Waridel M. Colzani
15:30	Coffee Break
16h00 - 16h30	Exam	Staff

 

Course material:
Protein Identification by MS De novo exercises De novo solutions Download the following files on your desktop: (right - click or [ctrl - click] and chose "download linked file to") BSA2.mgf rafts1_123spectra.mgf 461_740_only.mgf
Supplementary material:
Paul R. Graves and Timothy A. J. Haystead Molecular Biologist’s Guide to Proteomics Hanno Steen and Matthias Mann The ABC's (and XYZ's) of peptide sequencing Supplementary information: Web resources Supplementary material

 

Registration is closed

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Participants:

(14 submissions)

Status	Firstname	Lastname	Departement	Email
PhD student	George	Agak	Biochemistry
PhD student	Claire	Bertelli	Microbiologie
Post-doc	Livia	Brunner	Biochemistry
PhD student	Yemima	Budirahardja	ISREC
PhD student	Francesca	Capotosti	CIG
Group leader	Gilbert	Greub	Microbiolgie
Group leader	Keith	Harshman	CIG
Group leader	Joerg	Huelsken	ISREC
PhD student	Philippe	Menu	Biochemistry
Post-doc	Joëlle	Michaud	Herr
Post-doc	Dakang	Shen	DMF
PhD student	Katarzyna	Sikora	ISREC
Other	Frederic	Uyttebroeck	Microbiologie
PhD student	Norbert	Wiedemann	ISREC

 

 

Swiss Institute of Bioinformatics