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Classes
Advanced Graduate Course 2010
(BMG/PHR 744)
The science of proteomics and mass spectrometry
Provisional ScheduleStephen Barnes (4-7117; sbarnes@uab.edu)
Helen Kim (4-3880; helenkim@uab.edu)
Jim Mobley (6-6363; jim.mobley@ccc.uab.edu)
Jeevan Prasain (6-2612; prasain@uab.edu)
Peter Prevelige (5-5327; prevelig@uab.edu)
Matthew Renfrow (6-4681; Renfrow@uab.edu)
Winter Quarter 2010 (January 5th - March 23rd)
The use of mass spectrometry in the biomedical sciences has become increasingly important as applications of the huge contribution from sequencing of human and other genomes impacts research. This advanced course provides a perspective and training in:
- Methods of mass spectrometry-this involves sample ionization methods (electrospray ionization and matrix-assisted laser desorption ionization) and instrument/analyzer types (quadrupole, ion trap, time-of-flight, fourier transform-ion cyclotron resonance and accelerator mass spectrometry)
- Protein identification methods -"bottom up" methods - peptide mass fingerprinting and tandem mass spectrometry (collision-induced dissociation, infra-red multi-photon dissociation, electron capture dissociation) and "top-down"methods.
- Interpretation of mass spectra -discussion and application of MASCOT and other proteomics search engines
- The importance of isotopes in mass spectrometry and how they reveal exquisite issues in biology (pathways, protein turnover, age of cells, and cheating in the Tour de France)
- Experimental approaches used to isolate and purify proteins -this may involve selection of specific tissues and/or subcellular fractions, or the recovery of proteins expressed in recombinant bacteria or in normal cell hosts, and the protein purification methods.
- Use of mass spectrometry to study (a) protein structure in solution, (b) protein posttranslational modifications, (c) the function of proteins as enzymes
- Lipids, drug metabolism and metabolomics
- Quantification in proteomics and mass spectrometry
- Experimental design, gel image analysis and statistics
- Examples presented by UAB faculty of applications of these methods to current research problems
There will be two exams in the course, one on the fundamental concepts being presented, and the other, a take-home, comprehensive final, will consist of an integrated approach to a practical problem in proteomics and mass spectrometry..