Mass Spectrometry (MS)-based Proteomics and its application in biology
Aim and content
This course is free of charge for PhD students at Danish universities (except Copenhagen Business School), and for PhD students at graduate schools in the other Nordic countries. All other participants must pay the course fee.
Anyone can apply for the course, but if you are not a PhD student, you will be placed on the waiting list for the course until enrollment deadline. After the deadline of enrollment, available seats will be allocated to students on the waiting list.
Course title
Mass Spectrometry (MS)-based Proteomics and its application in biology
Learning objectives
A student who has met the objectives of the course will be able to:
1. Gain insights into the major high-end proteomics technologies and workflows
2. Ability to design quantitative proteomics experiments to address questions in biology
3. Analyze mass spectrometric data of peptides and proteins
4. Understand in which biological applications that quantitative proteomics can be applied
5. Gain insights into computational proteomics tools
Content
Basics about proteomics: MS technologies (orbitrap instrumentation and fragmentation mechanisms for peptide sequencing), Quantitative MS (SILAC, TMT and Label free), proteomics sample preparation methods, computational proteomics software and analysis strategies.
Applications of quantitative proteomics in biology: Large-scale proteome mapping of model organisms, Epigenetics and proteomics, stem cell biology, In-vivo SILAC, Large-scale phosphoproteomics, Other PTMs, Computational proteomics, organellar proteomics, protein-protein interaction screens, and protein-PTM interactions.
Participants
Maximum 24 PhD students with interest in proteomics, precision medicine, protein research, cell biology, cell signaling, omics technologies.
Relevance to graduate programmes
The course is relevant to PhD students from the following graduate programmes at the Graduate School of Health and Medical Sciences, UCPH:
All graduate programmes
Language
English
Form
A mixture of lectures, data analysis exercises, journal clubs (presented by the participating students) and scientific seminars by invited, international speakers. Technical lectures about modern proteomics technologies used to study cellular signaling pathways, protein-protein interactions and global proteome changes.
Course director
Jesper Velgaard Olsen, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), jesper.olsen@cpr.ku.dk
Michael Lund Nielsen, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), michael.lund.nielsen@cpr.ku.dk
Chunaram Choudhary, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), chuna.choudhary@cpr.ku.dk
Teachers
Matthias Selbach (Prof., MDC-Berlin);
Michiel Vermeulen (Prof., Univ. Radboud Universiteit Nijmegen);
Shabaz Mohammed (Prof., Oxford university);
Boris Macek (Professor, Univ. Tuebingen);
Tiziana Bonaldi (Gr. Leader, European Institute of Oncology);
Jürgen Cox, Max Planck Institute of Biochemistry
Marcus Krüger, University of Köln
Blagoy Blagoev (Professor, University of Southern Denmark);
Jens Andersen (Professor, University of Southern Denmark);
Frank Kjeldsen (Professor, University of Southern Denmark);
Jesper V. Olsen, Professor, CPR, SUND, UCPH;
Michael Lund Nielsen, Professor, CPR, SUND, UCPH;
Chunaram Choudhary, Professor, CPR, SUND, UCPH;
Atul Deshmukh, Ass. Professor, CPR, SUND, UCPH;
Lars J. Jensen, Professor, CPR, SUND, UCPH;
Dates
November 9-13, 2020, all days 9-17
Course location
Novo Nordisk Foundation Center for Protein Research, room 6.2.09
Registration
Please register before 15 September 2020
Apply: https://phdcourses.ku.dk/tilmelding.aspx?id=107662&sitepath=SUND
Seats to PhD students from other Danish universities will be allocated on a first-come, first-served basis and according to the applicable rules.
Applications from other participants will be considered after the last day of enrolment.
Anyone can apply for the course, but if you are not a PhD student, you will be placed on the waiting list for the course until enrollment deadline. After the deadline of enrollment, available seats will be allocated to students on the waiting list.
Course title
Mass Spectrometry (MS)-based Proteomics and its application in biology
Learning objectives
A student who has met the objectives of the course will be able to:
1. Gain insights into the major high-end proteomics technologies and workflows
2. Ability to design quantitative proteomics experiments to address questions in biology
3. Analyze mass spectrometric data of peptides and proteins
4. Understand in which biological applications that quantitative proteomics can be applied
5. Gain insights into computational proteomics tools
Content
Basics about proteomics: MS technologies (orbitrap instrumentation and fragmentation mechanisms for peptide sequencing), Quantitative MS (SILAC, TMT and Label free), proteomics sample preparation methods, computational proteomics software and analysis strategies.
Applications of quantitative proteomics in biology: Large-scale proteome mapping of model organisms, Epigenetics and proteomics, stem cell biology, In-vivo SILAC, Large-scale phosphoproteomics, Other PTMs, Computational proteomics, organellar proteomics, protein-protein interaction screens, and protein-PTM interactions.
Participants
Maximum 24 PhD students with interest in proteomics, precision medicine, protein research, cell biology, cell signaling, omics technologies.
Relevance to graduate programmes
The course is relevant to PhD students from the following graduate programmes at the Graduate School of Health and Medical Sciences, UCPH:
All graduate programmes
Language
English
Form
A mixture of lectures, data analysis exercises, journal clubs (presented by the participating students) and scientific seminars by invited, international speakers. Technical lectures about modern proteomics technologies used to study cellular signaling pathways, protein-protein interactions and global proteome changes.
Course director
Jesper Velgaard Olsen, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), jesper.olsen@cpr.ku.dk
Michael Lund Nielsen, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), michael.lund.nielsen@cpr.ku.dk
Chunaram Choudhary, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), chuna.choudhary@cpr.ku.dk
Teachers
Matthias Selbach (Prof., MDC-Berlin);
Michiel Vermeulen (Prof., Univ. Radboud Universiteit Nijmegen);
Shabaz Mohammed (Prof., Oxford university);
Boris Macek (Professor, Univ. Tuebingen);
Tiziana Bonaldi (Gr. Leader, European Institute of Oncology);
Jürgen Cox, Max Planck Institute of Biochemistry
Marcus Krüger, University of Köln
Blagoy Blagoev (Professor, University of Southern Denmark);
Jens Andersen (Professor, University of Southern Denmark);
Frank Kjeldsen (Professor, University of Southern Denmark);
Jesper V. Olsen, Professor, CPR, SUND, UCPH;
Michael Lund Nielsen, Professor, CPR, SUND, UCPH;
Chunaram Choudhary, Professor, CPR, SUND, UCPH;
Atul Deshmukh, Ass. Professor, CPR, SUND, UCPH;
Lars J. Jensen, Professor, CPR, SUND, UCPH;
Dates
November 9-13, 2020, all days 9-17
Course location
Novo Nordisk Foundation Center for Protein Research, room 6.2.09
Registration
Please register before 15 September 2020
Apply: https://phdcourses.ku.dk/tilmelding.aspx?id=107662&sitepath=SUND
Seats to PhD students from other Danish universities will be allocated on a first-come, first-served basis and according to the applicable rules.
Applications from other participants will be considered after the last day of enrolment.
Note: All applicants are asked to submit invoice details in case of no-show, late cancellation or obligation to pay the course fee (typically non-PhD students). If you are a PhD student, your participation in the course must be in agreement with your principal supervisor.