30 June 2023
Introduction to Nutritional Metabolomics
The course will provide a general overview of LC-MS based untargeted metabolomics from study design to results and will be exemplified with its specific application in nutrition. It will be delivered using a mixture of lectures, hands-on data preparation and analysis, computer-based practical sessions, and discussions. Visits to wet labs and instructions on human sample preparation procedures is included but there is no practical lab work.
The students will go through common steps in a typical metabolomics study using a real-life case. This case study includes plasma (or urine) samples from a nutritional intervention. The sample preparation and analysis on UPLC-QTOF has been conducted and the students will further process and analyze the acquired data with various freeware tools (e.g. R, XCMS, MZmine etc). They will finally work on identification of relevant metabolites using manual analysis assisted by several web-based databases and structure elucidation tools. The course will conclude by presentations of reports generated by the students based on the case study.
The students should expect a fairly technical course with a strong focus on the hands-on data analysis abilities and data interpretation skills. Programming skills are not a prerequisite for entering the course and students are guided through the exercises. However, for students that are not familiar with R we expect them to explore the self-study curriculum based on short videos and texts that cover essential programming concepts.
The project work has a high workload and hence evening work can be expected during the course week.
TEACHING AND LEARNING METHODS
Lectures, hands-on exercises, group discussions.
LECTURERS
Professor Lars Ove Dragsted
Assistant Professor Jan Stanstrup
Postdoc Parvaneh Ebrahimi
Associate Professor Henrik Munch Roager
Assistant Professor Giorgia La Barbera
REMARKS
Breakfast (light), snacks, lunch and dinner will be provided during the course.
For more information please contact Gladys Thingstrup Mathieu: gtm@nexs.ku.dk
Date of the exam is Friday 30th of June 2023 from 09:00 to 12:30.
Course leader
Jan Stanstrup
JST@NEXS.KU.DK
Course aim
LEARNING OUTCOME
The aim of this course is to introduce the students to all phases in a nutritional metabolomics study, to instruct the student on sample handling, and to train the student in data analysis and in the use of freely available tools for the metabolomics data flow.
After completing the course the students should be able to:
• Describe the handling of urine, plasma and other samples collected from humans for metabolomics analysis
• Understand the basic principles of UPLC-QTOF technology
• Suggest which sample type to analyze for a specific research question and propose the relevant sample collection and preparation procedure
• Carry out data preprocessing using freely available tools (R/XCMS)
• Perform basic univariate and multivariate analysis (e.g. R)
• Interpret the MS/MS spectra by manual interpretation and by utilizing available tools (e.g. MetFusion, MetFrag) and databases (e.g. HMDB, METLIN and MassBank)
Fee info
EUR 700: There is no fee for the PhD students under the Open Market in Denmark.
Other participants are to pay a course fee of 700 EUR. The fee must be paid no later than the 9th of June 2023.
Each student must pay and arrange their own travel and accommodation in Copenhagen during the course.
Breakfast (light), snacks, lunch and dinner will be provided during the course.