Advanced special topics course in metabolomics 2023
(GBSC 724)
Course will be held on Mondays, Wednesdays and Fridays 9-10:30 am in the SHELBY 1115
Tentative Schedule
The PowerPoint versions are available on request to sbarnes@uab.edu.
| Date | Lecturer | Topic |
|---|---|---|
| Jan 9, Mon | S. Barnes | Transition from metabolism to metabolomics and targeted/untargeted approaches [PDF File] |
| Jan 11, Wed | S. Barnes | The extraordinary chemistry of the metabolome [PDF File] |
| Jan 13, Fri | H. Tiwari | Designing a complex metabolomics experiment [PDF File] |
| Jan 16, Mon | No class | Martin Luther King Holiday |
| Jan 18, Wed | W. Placzek | The platform - fundamentals in NMR and metabolomics [PDF File] |
| Jan 20, Fri | J. Prasain | Extracting the metabolome (fluids, cells and tissues) [PDF File] |
| Jan 23, Mon | S. Barnes | The platform – fundamentals in GC- and LC-mass spectrometry [PDF File] |
| Jan 25, Wed | D. Sharer | Targeted metabolomics for congenital disease in children [PDF File] |
| Jan 27, Fri | J. Prasain | MSMS of small molecules - interpretation [PDF File] |
| Jan 30, Mon | J. Prasain | SWATH-MS, Ion Mobility and LC-MS for lipidomics [PDF File] |
| Feb 1, Wed | W. Placzek | Processing NMR data [PDF File] |
| Feb 3, Fri | Students’ presentations | |
| Feb 6, Mon | S. Barnes | MS-DIAL 4.92 – a comprehensive metabolomics tool – bring PC |
| Feb 8, Wed | M. Wang* | GNPS analysis of MS-DIAL data [PDF File] |
| Feb 10, Fri | S. Barnes | Statistical analysis of MS-DIAL data with MetaboAnalyst 5.0 |
| Feb 13, Mon | S. Barnes | MZmine 3.0.10 hands-on class exercise |
| Feb 15, Wed | S. Barnes | Drivers of the plasma metabolome – paper discussion |
| Feb 17, Fri | The TMAO story and follow up – Students’ presentations | |
| Feb 20 Mon | S. Barnes | Pathway databases and metabolomics workbench |
| Feb 22, Wed | S. Barnes | Bile acid metabolism |
| Feb 24, Fri | No Class | |
| Feb 27, Mon | C. Beecher*** | Isotope Ratio Outlier Analysis (IROA) - video |
| Mar 1, Wed | C. Beecher*** | Building a metabolite standards database |
| Mar 3, Fri | Student presentations | |
| Mar 6, Mon | S. Barnes | Peaks-to-pathways - Mummichog analysis of data |
| Mar 8, Wed | S. Barnes | Isotopes and pathway dynamics |
| Mar 10, Fri | Art Edison**** | NMR metabolomics |
| Mar 13, Mon | J. Prasain | Lipid maps database [PDF File] |
| Mar 15, Wed | J. Prasain | Validating metabolites and novel prostanoid molecules [PDF File] |
| Mar 17, Fri | Student presentations | |
| Mar 20, Mon | S. Barnes | Real-time connection of Metabolomics with Medicine and Surgery and the rest of life [Gordon Research Conference] [PDF File] |
| Mar 22, Wed | J. Kabarowski | Lipid imaging-mass spectrometry (video) |
| Mar 24, Fri | S. Barnes | Metabolomics in clinical studies |
| Mar 27, Mon | X. Hu***** | Integration of -omics data [PDF File] |
| Mar 29, Wed | T. Marquez-Lago | Machine learning and artificial intelligence and its application to metabolomics |
| Mar 31, Fri | Laura Reed (UA) | Integrating the metabolome with the genome and transcriptome in the context of environmental exposure in the fruit fly (video) |
| Apr 3, Mon | S. Barnes | Metabolomics and microbiome |
| Apr 5, Wed | J. Zhang | Measurement of mitochondrial function using the Seahorse extracellular flux bioanalyzer |
| Apr 6, Thur | R. Quinn** | Novel bile acid-microbiome interactions [PDF File] |
| Apr 7, Fri | S. Barnes | Course review |
| Apr 14, Mon | FINAL exam due |
*UC-Irvine
**Michigan State U.
***IROA Technologies
****U. Georgia
*****Emory U.