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Basics of Mass Spectrometry Based Proteomics
Provider: Department of Plant and Environmental Sciences

Activity no.: 5724-17-09-31 
Enrollment deadline: 20-01-2018
PlaceDepartment of Plant and Environmental Sciences
Date and time12.02.2018, at: 09:00 - 16.02.2018, at: 16:00
Regular seats12
Course fee150,00 kr.
ECTS credits1,50
Contact personAnnemarie Matthes    E-mail address: annemarie.matthes@plen.ku.dk
Enrolment Handling/Course OrganiserAnnemarie Matthes    E-mail address: annemarie.matthes@plen.ku.dk
Written languageEnglish
Teaching languageEnglish
Exam detailsThe participant needs to deliver an application where he/she describes his/her research and what point should be solved by proteomics. The participant needs to deliver a short presentation, where he needs to introduce the other course participants to his/her research field and question with afterwards discussion for a suitable experimental proteomics design to answer the question The participant needs to show a succesful data evaluation during after the computer exercise - the participant needs to show active participation in discussion with the proteomics experts about the proteomics approaches and his/her own research
Course workload
Course workload categoryHours
Preparation / Self-Study4,00
Project work3,00


The evolving field of mass spectrometry based proteomics has brought new crucial insights for the understanding of living organisms. Fast progress in the instrumentation of mass spectrometers and the development of different software tools, have enabled the easy elucidation of protein identity, posttranslational modifications, protein dynamics, interaction partners and protein structure with high speed and throughput. The idea of having it as standard method in the lab is soon a reality. Therefore it is necessary to get an understanding of the basics of the functions of the mass spectrometers, protein separation techniques, and the data analysis and evaluation.

This course will give an overview for these three parts of proteomics with a focus on protein identification, posttranslational modification and quantification with a focus on the research and interest of the participants. It will be especially relevant for PhD students, who are interested in solving biological questions in plants during their own PhD-project and will provide an entrance point to the importance of experimental design, and introduction hands-on mass spectrometer use and subsequent data evaluation.

The course will cover the theory of mass spectrometry, different proteomics approaches with the possibility to discuss the biological questions relevant to their own research topics together with invited proteomics specialists, a short hands-on experience at the mass spectrometer and the basics of data evaluation with a small given proteomics project. (In case you are interested in, you could also bring your own material to prepare your own proteomics sample. This would need to be discussed before the course with the course responsible, cause there might be some restrictions)

Learning outcome
- To be able design their own basic proteomics experiment
- To prepare samples suitable for basic mass spectreomtry based proteomics
- To identify proteins by search engines
- To critically evaluate basic results derived by mass spectrometry proteomics
- To discuss with proteomics experts about their own proteomics research approach

The abc's (and xyz's) of peptide sequencing, Steen and Mann, 2004
mass spectrometry based proteomics and network biology, Bensimon et al., 2012

Teaching and learning methods
- Research based teaching
- Classical lectures
- Seminars
- Self preparation and presentation of students
- Computer exercise
- Hands on training


1)   Register online by click on “APPLY”

2)   Send your course application to Annemarie Matthes (mail annemarie.matthes@plen.ku.dk ) by the 15th of December 2017 at the latest.

Your application must contain a brief CV and a short description of your scientific background and motivation for applying for the course (max 10 lines).

All applicants will be informed about their course participation in the first week of January 2018.



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