Advanced special topics course in metabolomics 2024
(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 8, Mon | S. Barnes | Transition from metabolism to metabolomics and targeted/untargeted approaches [PDF File] |
| Jan 10, Wed | S. Barnes | The extraordinary chemistry of the metabolome [PDF File] |
| Jan 12, Fri | H. Tiwari | Designing a complex metabolomics experiment [PDF File] |
| Jan 15, Mon | No class | Martin Luther King Holiday |
| Jan 17, Wed | W. Placzek | The platform - fundamentals in NMR and metabolomics [PDF File] |
| Jan 19, Fri | J. Prasain | Extracting the metabolome (fluids, cells and tissues) [PDF File] |
| Jan 22, Mon | S. Barnes | The platform – fundamentals in GC- and LC-mass spectrometry [PDF File] |
| Jan 24, Wed | D. Sharer | Targeted metabolomics for congenital disease in children [PDF File] |
| Jan 26, Fri | J. Prasain | MSMS of small molecules - interpretation [PDF File] |
| Jan 29, Mon | J. Prasain | SWATH-MS, Ion Mobility and LC-MS for lipidomics [PDF File] |
| Jan 31, Wed | W. Placzek | Processing NMR data [PDF File] |
| Feb 2, Fri | Students’ presentations | |
| Feb 5, Mon | S. Barnes | MS-DIAL 4.92 – a comprehensive metabolomics tool – bring PC |
| Feb 7, Wed | M. Wang* | GNPS analysis of MS-DIAL data |
| Feb 9, Fri | S. Barnes | Statistical analysis of MS-DIAL data with MetaboAnalyst 5.0 |
| Feb 12, Mon | S. Barnes | MZmine 3.9 hands-on class exercise |
| Feb 14, Wed | S. Barnes | Pathway databases and metabolomics workbench |
| Feb 16, Fri | J. Mitchell** | Asari – accelerating metabolomics data analysis [PDF File] |
| Feb 19 Mon | The TMAO story and follow up – Students’ presentations | |
| Feb 21, Wed | S. Barnes | Bile acid metabolism |
| Feb 23, Fri | Andrew Patterson*** | Novel bile acid-microbiome interactions |
| Feb 26, Mon | S. Barnes | Peaks-to-pathways - Mummichog analysis of data |
| Feb 28, Wed | C. Beecher**** | Isotope Ratio Outlier Analysis (IROA) - video |
| Mar 1, Fri | C. Beecher**** | Building a metabolite standards database |
| Mar 4, Mon | S. Barnes | Isotopes and pathway dynamics [PDF File] |
| Mar 6, Wed | Student presentations | |
| Mar 8, Fri | Mario Uchimiya***** | NMR metabolomics |
| Mar 11, Mon | J. Prasain | Lipid maps database |
| Mar 13, Wed | J. Prasain | Validating metabolites and novel prostanoid molecules [PDF File] |
| Mar 15, Fri | Student presentations | |
| Mar 18, Mon | S. Barnes | In situ lipidomics in the surgical suite [PDF File] |
| Mar 20, Wed | Juhi Samal | DESI imaging-mass spectrometry |
| Mar 22, Fri | S. Barnes | Metabolomics in clinical studies |
| Mar 25, Mon | Laura Reed (UA) | Integrating the metabolome with the genome and transcriptome in the context of environmental exposure in the fruit fly (video) |
| Mar 27, Wed | S. Barnes | TBA |
| Mar 29, Fri | T. Marquez-Lago | Machine learning and artificial intelligence and its application to metabolomics |
| Apr 1, Mon | Jianhua Zhang | Measurement of mitochondrial function using the Seahorse extracellular flux bioanalyzer |
| Apr 3, Wed | S. Barnes | Metabolomics and microbiome |
| Apr 5, Fri | X. Hu****** | Integration of -omics data |
| Apr 12, Mon | FINAL exam due |
*UC-Irvine
**Jackson Labs
***Penn State U.
****IROA Technologies
*****U. Georgia
******Emory U.