Medical Proteomics (MSc)

Compulsory Course

• in MSc Biomedical Sciences, 3^rd Semester 
• 6h/week (2L/2E/2P)
• Credits: 8 ECTS

Learning outcomes:

Successful students can

• find suitable research articles in the literature and select the necessary information in publications for state of the art sample preparation for electrophoretic, chromatographic and mass spectrometric analyses
• write detailed lab scripts for sample preparation based on published procedures in the literature
• design reasonable proteomics work-flows for selected introductionary applications in the field of mining and differential proteomics
• decide on reasonable methods for protein purification
• explain typical current proteomics strategies and applications to a novice in the field

Content:

• Sample preparation: sampling, sample handling, cell lysis methods, laser microdissection, diverse prefractionation techniques (like i.e. affinity and gel filtration chromatography, protein depletion, ultracentrifugation), protein digestion, protein quantification, clinical requirements
• Separation techniques: 1- and 2D gel electrophoresis, DIGE, preparative IEF, capillary electrophoresis, HPLC and UPLC (employing Reversed Phase and Ion Exchange), multidimensional LC
• Mass spectrometry: general principles, MALDI and ESI ionization, TOF, quadrupole, FT-ICR/ orbitrap, ion trap, tandem and hybrid instrumentation, CID, ECD/ETD, LC-ESI, SELDI, MALDI imaging
• Proteomics strategies: bottom up, middle down, top down, discovery vs. hypothesis based, identification based on PMF and peptide sequencing, label and label free quantification approaches like SRM/MRM, SILAC, iTRAQ, ICAT, database analysis, search algorithm
• Applications: mining, differential like biomarker discovery, protein-protein interactions, posttranslational modifications