Advanced special topics course in metabolomics 2020
(GBSC 724)

Course Description

Course will be held on Mondays, Wednesdays and Fridays 9-10:30 am in the SHELBY 1015

Tentative Schedule

Date Lecturer Topic
Jan 13, Mon S. Barnes Transition from metabolism to metabolomics and targeted/untargeted approaches [PDF File]
Jan 15, Wed S. Barnes The extraordinary chemistry of the metabolome [PDF File]
Jan 17, Fri H Tiwari Designing a complex metabolomics experiment [PDF File]
Jan 20, Mon   Martin Luther King Holiday
Jan 22, Wed W. Placzek The platform - fundamentals in NMR and metabolomics [PDF File]
Jan 24, Fri J. Prasain Extracting the metabolome (fluids, cells and tissues) [PDF File]
Jan 27, Mon S. Barnes The platform - GC- and LC-mass spectrometry [PDF File]
Jan 29, Wed D. Sharer Targeted metabolomics for congenital disease in children [PDF File]
Jan 31, Fri S. Barnes MZmine hands-on – bring PC [PDF File]
Feb 3, Mon S. Barnes Uploading GC-MS and LC-MS data to XCMSonline [PDF File]
Feb 5, Wed S. Barnes Evaluating XCMS analysis
Feb 7, Fri S. Barnes Output of XCMS features for univariate analysis [PDF File]
Feb 10, Mon S. Barnes Statistical analysis of XCMS data with MetaboAnalyst [PDF File]
Feb 12, Wed W. Placzek Processing NMR data [PDF File]
Feb 14, Fri S. Barnes Evaluation of MZmine, XCMS and MS-DIAL [PDF File 1] [PDF File 2] [Reference]
Feb 17, Mon S. Barnes The TMAO story and follow up [PDF File]
Feb 19, Wed S. Barnes Pathway databases [PDF File]
Feb 21, Fri S. Barnes The metabolomics workbench
Feb 24, Mon   No class
Feb 26, Wed S. Barnes TBA
Feb 28, Fri Student presentations
Mar 2, Mon J. Prasain MSMS of small molecules - interpretation [PDF File]
Mar 4, Wed J. Prasain Validating metabolites [PDF File]
Mar 6, Fri S. Barnes Mummichog analysis of data
Mar 9, Mon C. Beecher* Isotope Ratio Outlier Analysis (IROA)
Mar 11, Wed S. Barnes Isotopes and pathway dynamics [PDF File]
Mar 13, Fri   Student presentations
Mar 16, Mon J. Prasain SWATH-MS, Ion Mobility and LC-MS for lipidomics [PDF File]
Mar18, Wed J. Prasain Lipid maps database [PDF File]
Mar 20, Fri J Kabarowski Lipid imaging-mass spectrometry [PDF File]
Mar 23, Mon J. Prasain Novel prostanoid molecules [PDF File]
Mar 25, Wed
Student presentations
Mar 27, Fri N. Garg**** Integrating the microbiome and metabolomics
Mar 30, Mon S. Barnes In situ lipidomics in the surgical suite [PDF File]
Apr 1, Wed K. Uppal** Integrating the metabolome with the genome, transcriptome and proteome
[PDF File]
Apr 3, Fri Jial Li The drug exposome in a clinical trial [PDF File] [Reference 1] [Reference 2]
[Presentation 1] [Presentation 2]
Apr 6, Mon   Student presentations
Apr 8, Wed   Student presentations
Apr 13, Mon Dr. Tatiana Marquez-Lago Machine learning in metabolomics (extra class )
FINAL exam due

At this time, the standalone software we will use, ABC, MS-DIAL. MSConvert and MZmine, work only on a PC. MZmine used to be usable on a Mac, but new Mac OS (10.15.1 Catalina) has made it impossible due to security issues.

*IROA Technologies
** Emory University
**** Georgia Institute of Technology