Advanced Graduate Course 2014
The science of Omics and mass spectrometrySchedule
Spring Semester 2014 (January 6th – March 21nd)
The use of mass spectrometry in biomedical sciences has become increasingly important as applications of the huge contribution from sequencing of human and other genomes continue to impact research. This advanced course provides a perspective and training in basic methods in mass spectrometry and their application to biomedical research:
- Fundamentals of mass spectrometry - 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, Orbi-trap, ion mobility)
- 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 -omics search engines for proteomics (MASCOT, SEQUEST) and metabolomics (XCMS/Metlin)
- Untargeted (discovery) methods in proteomics and metabolomics
- Targeted method quantification in proteomics and metabolomics
- Examples presented by UAB and outside faculty of applications of these methods to current research problems
- Recovery and fractionation of proteins and metabolites prior to mass spectrometry
- Study of (a) protein structure in solution, (b) protein posttranslational modifications, and (c) the function of proteins as enzymes
- Glycomics and kidney disease
- Mass spectrometry in forensics
- Tissue imaging analysis and application
- The importance of isotopes in mass spectrometry and their application to fluxomics.
The course will contain two exams; the first is on the basic techniques of -omics and mass spectrometry; the second will be comprehensive to help participants integrate the concepts being presented in the course. Examples of this from last year's course are available on request. Students will also present during the course a summary of a paper illustrating application of omics and mass spectrometry methods.