Metabolomics Data interpretation
General context
This training will provide an overview of the analytical techniques and data analysis tools that are applied to study the metabolome and will provide insights on how to interpret metabolomics data.
The first day of lectures (Monday 11 March 2019, Leuven) will cover recent developments and breakthroughs in the application of metabolomics. We will start the day with an overview of sampling preparation requirements for metabolomics and data analysis pipelines available at VIB. Next session will focus on central metabolomics – including interpretation of labeling data, labeling data mapping and thermodynamics. Second session will be dedicated to lipidomics of membrane lipids and fatty acids. Next, secondary metabolomics approaches to identify and quantify secondary metabolites in both discovery and targeted mode will be discussed. We will end the day with a keynote talk on metabolic fluxes.
There will also be two hands-on sessions for which you need to register seperately:
Hands-on session with focus on secondary metabolism: Monday 1 April 2019, iGent - Ghent
This hands-on session will focus on the processing of raw data obtained via either Gas Chromatography- (GC) or Liquid Chromatography- (LC) mass spectrometry (MS). In addition, based on the comparative analysis between two sample sets (e.g. control vs treatment), the subsequent identification of differential metabolites will be introduced. Afterwards, the trainee should be able to perform independently a comparative analysis of raw metabolome data and to pinpoint the well-known metabolites in the chromatogram. This training is intended for people who have a basic knowledge of R. Participants who have never worked with R should first follow the course Basic statistics in R. We can provide a laptop for you, or you may bring your own laptop.
Trainer: Kris Morreel, VIB-UGent Center for Plant Systems Biology
Hands-on session with focus on primary metabolism: Friday 5 April 2019, Park Inn Leuven
During this session we will perform the data-processing of GC-MS and LC-MS spectra obtained from mammalian derived samples in a tracer-(13C)-metabolomics setup using a software tool (EMFASYS) developed at the Metabolomics Expertise Center Leuven. As such the focus will be on (1) the correct and consequent integration of isotopologue profiles and (2) the identification of central carbon metabolites. Different identification strategies will be demonstrated, such as retention time – m/z and MS/MS based strategies. We will also take a first step towards the biochemical interpretation of some metabolite 13C- labeling patterns. Having some experience with command line interfaces is recommended but not mandatory.
Trainer: Dries Verdergem, VIB Metabolomics Core Leuven
This training targets scientists who want to know how metabolomics approaches might benefit their research and more experienced users who want to keep up to date with metabolomics data analysis and interpretation. It is aimed at PhD students, postdoctoral fellows, technicians or other scientists with a molecular biology background.
- Sarah-Maria Fendt, VIB-KU Leuven Center for Cancer Biology
- Rose Goodchild, VIB-KU Leuven Center for Brain & Disease Research
- Kris Morreel,VIB-UGent Center for Plant Systems Biology
- Dries Verdegem, VIB Metabolomics Core Leuven
- Participation is free for VIB participants.
- Registration fee for Academics from Universities and Centers of Excellence is € 50 per day(21% VAT incl.).
- Registration fee for participants of EU-LIFE partner institutes is € 50 per day(21% VAT incl.).
- Registration fee for industry is € 300 per day(21% VAT incl.).
- Note that upon no-show without valid justification you will be blacklisted for the VIB training program for 1 year and for VIB participants the reimbursement of the catering costs (€ 50) will be charged to the research group. Click here for more information.
Trainers
Geert Goeminne
Geert Goeminne is manager of the VIB Metabolomics Core in Ghent
Bart Ghesquière
Ronan M.T. Fleming
Systems Biochemistry Group, University Leiden, Nl
Jörg Büscher
Metabolomics Facility, Max Planck Institute of Immunobiology and Epigenetics, Freiburg, DE
Junyoung O. Park
Chemical and Biomolecular Engineering, UCLA, US
Christer Ejsing
Department of Biochemistry and Molecular Biology, SDU, Odense, DK
Joanne Kelleher
Departement of Chemical Engineering, MIT, Cambridge, US
Tomas Pluskal
Whitehead Institute of Biomedical Research, MIT, Cambridge, US
Emma Schymanski
Luxembourg Centre for Systems Biomedicine, Université du Luxembourg, LU
Karsten Hiller
Bioinformatics and Biochemistry, TU Braunschweig, DE
Program
Welcome
Overview of the metabolomics data analysis pipelines at VIB
Geert Goeminne & Bart Ghesquière, VIB metabolomics Core, BE
Central Metabolism
Coffee
13C label tracing on the example of immune cell activation
Jörg Büscher, Metabolomics Facility, Max Planck Institute of Immunobiology and Epigenetics, Freiburg, DE
Integration of metabolomics and fluxomics via thermodynamics
Junyoung O. Park, Chemical and Biomolecular Engineering, UCLA, US
Lunch
Lipidomics
Functional lipidomics: Harnessing the power of high resolution mass spectrometry for the analysis of lipid metabolism
Christer Ejsing, Department of Biochemistry and Molecular Biology, SDU, Odense, DK
Isotope Spectral Analysis (ISA) fatty acid metabolism
Joanne Kelleher, Department of Chemical Engineering, MIT, Cambridge, US
Coffee
Secondary Metabolism
Metabolomics data processing and analysis with MZmine 2
Tomáš Pluskal, Whitehead Institute for Biomedical Research, MIT, Cambridge, US
Finding small molecules in big data: identifying metabolites with mass spectrometry
Emma Schymanski, Luxembourg Centre for Systems Biomedicine, Université du Luxembourg, LU
Keynote
From isotopes to pathways: stable-isotope assisted non-targeted metabolic profiling
Karsten Hiller, Bioinformatics and Biochemistry, TU Braunschweig, DE
Hands-on session with focus on secondary metabolism
Trainer: Kris Morreel, VIB-UGent Center for Plant Systems Biology
iGhent - Ghent
Hands-on session with focus on primary metabolism
Trainer: Dries Verdergem, VIB Metabolomics Core Leuven
Park Inn by Radisson, Leuven
Practical info
Leuven - Park Inn by Radisson
Martelarenlaan 36
3010 Leuven
Belgium
Leuven - Park Inn by Radisson
The hotel is located 300m from Leuven Central Station. The hotel connects to Leuven Central Station by a pedestrian bridge.
Leuven - Park Inn by Radisson
Park Inn hotel has no own parking. It is possible to park underground in P1-Parking Station Leuven, Martelarenlaan 4, 3010 Leuven or in parking De Bond, Martelarenlaan 18, 3010 Leuven.
Leuven - Park Inn by Radisson
+32 16 61 66 02
sales.leuven@parkinn.com