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Metabolomics and proteomics


Technical University of Denmark


General course objectives:
To give the students an overview of the fundamental analytical techniques used to analyze small organic molecules and proteins and how they can be extracted, prepared, and processed for chemical analysis. The major objective of the course is to give the students a solid understanding of chromatographic based analytical methods with special emphasis on analysis and detection of both known and unknown compounds by interpretation of mass spectrometric data. The course aims broadly at PhD students studying biotechnology and health sciences, who want to strengthen their analytical chemical knowledge.

Learning objectives:
A student who has met the objectives of the course will be able to:
  • Describe the general principles of sample preparation of small organic molecules and proteins, e.g. using solid phase extraction (SPE).
  • Explain the general principle of chromatography (LC, GC) including the use of different relevant types of columns.
  • Explain the general principles of diode array detection (DAD) and mass spectrometry (e.g. QTOF) coupled to liquid chromatography (LC-DAD-MS).
  • Demonstrate the principles of dereplication and accurate mass spectrometry.
  • Perform data analysis using standard instrumental software and databases for LC-DAD-MS analysis.
  • Compare analytical results to information in commercial and open source databases.
  • Explain the basic principles behind quantitative analysis of small organic molecules.
  • Explain the principles behind mass spectrometry based (e.g. Orbitrap and MALDI TOF) analysis of proteins.
  • Describe common methodology in proteomics workflows.
  • Understand the various ways of conducting quantitative proteomics, e.g label-free vs. labeled.
  • Gain insight into MS-based proteomics data processing.

Contents:
Industrial production of small organic biomolecules (metabolites or natural products) as well as proteins using microbial cell factories is estimated to increase dramatically in the coming years. This includes important products such as antibiotics, anticancer agents, smaller proteins, and food ingredients like aroma compounds, pigments, antioxidants and vitamins. Other metabolites are toxic to humans and are therefore to be avoided in fermented foods and feeds. This course will teach the basic principles behind modern methods for analysis of small organic molecules, as well as proteins, especially based on liquid chromatography coupled to mass spectrometry. The topics will be presented in a mixture of lectures, exercises, group work and presentations.

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Course organizer
Erwin Marten , Scott Alexander , Thomas Ostenfeld , Konstantinos
Place/Venue
Anker Engelunds Vej 1
City
2800 Kgs. Lyngby
Country
Denmark
Workload
2.5
Link
http://kurser.dtu.dk/course/27833