Advanced Methods for the Analysis of Protein Disease Mechanisms - elective

Course content

Through introductory lectures, student lead seminars, demonstrations and lab exercises this course aims at preparing students for a career in biomedical research. It brings together a group of experienced researchers and teachers to provide an overview of several advanced methodologies used to characterize protein mechanisms of action in living cells.  


MSc Programme in Human Biology - Elective

Learning outcome

After completing the course the student is expected to:


  • Explain the rationale for the utilization of several advanced research methodologies to characterize protein mechanisms of action “in vivo” with a focus on 4 general areas:  
    • 1) mass spectrometry based methodologies for quantitative analysis of proteomes and its posttranslational modifications,
    • 2) light microscopy based analysis of protein signaling and protein-protein interactions,
    • 3) gene editing and
    • 4) the use of chromatin immuneprecipitation and immunocytochemistry-FISH for the analysis protein regulation of DNA/RNA metabolism.
  • Explain the principles of antibody based methods to study chromatin regulation and  function in living cells and tissues.
  • Understand the principles of mass spectrometry based methodologies applied to protein analysis and its applications to cell signaling studies, including isotope labeling for MS-based quantitation.
  • Explain sample preparation methods for the analysis of protein posttranslational modifications.
  • Understand the basis for the interpretation of MS/MS spectra
  • Explain the physical principles that govern the use of light microscopy methods for the characterization of proteins in living cells.
  • Identify the different microscopy methods commonly used for analysis of cellular protein signaling events, including the use of advanced imaging analysis and live cell imaging.
  • Understand the basis for the analysis of protein-protein interactions in living cells using advanced microscopy techniques such as FRAP and FRET.
  • Identify advantages and limitations of the use of above listed methods.



  • Interpret the experimental data obtained by the above mentioned methods.
  • Present experimental data in an understandable and scientifically sound manner.
  • Discuss and critically review articles and research proposal for appropriateness in the utilization of methodological approaches for characterization of protein function in vivo.
  • Design a tailored research plan to test specific hypotheses related to the characterization of protein function in mammalian cells using relevant and informative methods.



The students will develop competencies in:

  • project planning,
  • data acquisition and interpretation
  • scientific communication both written and oral.

The course is comprised of two modules: an e-learning module comprising online lectures, theoretical exercises and literature reviews and a classroom learning module lasting two weeks mainly comprising student-led seminars, lab exercises and demonstrations.

A completed Bachelor degree within the Medical, Pharmaceutical or Natural Sciences. The students must be able to read and write English at a relevant scientific level.

Continuous feedback during the course of the semester
Type of assessment
Requirement to attend classes
Written assignment, 72 hours
Type of assessment details
Completion of e-learning modules and approved participation in the teaching and training activities
The written assignment will be in the form of a 2 pages long essay. The student will have 72 hours to complete the assignment and submit the essay.
Exam registration requirements


All aids allowed
Marking scale
passed/not passed
Censorship form
No external censorship
Internal examiners
Criteria for exam assessment

To achieve the assesment Passed, the student must adequately be able to:


  • Complete most of their practical and theoretical exercises in a timely and satisfactory manner.
  • Demonstrate an understanding of the methods used for gene editing in mammalian cell and animal models
  • Demonstrate an understanding of advanced methodologies to study protein-DNA interactions in living cells or tissues
  • Demonstrate an understanding of the principles of mass spectrometry applied to protein analysis.
  • Demonstrate an understanding of the utilization of high-end quantitative proteomics technologies in the characterization of biological systems, with a focus on stable isotope labeling and high-resolution mass spectrometry.
  • Demonstrate understanding of light microscopy methods for the functional characterization of proteins in living cells.
  • Analyze and evaluate the utilization of microscopy for the characterization of protein-protein interactions in living cells. 



  • Critical assesment of research reports and proposals for the correct utilization of the methods covred in the course, including data interpretation.
  • Design a coherent research plan to test specific hypotheses related to the characterization of protein function in mammalian cells using relevant and informative methods

Single subject courses (day)

  • Category
  • Hours
  • Lectures
  • 18
  • Preparation
  • 32
  • Practical exercises
  • 48
  • Seminar
  • 15
  • Exam
  • 24
  • English
  • 137


Course number
Programme level
Full Degree Master

1 block

Block 2



E-learning module:
Classroom teaching:
Examination (72 hours):
20 particpants
Study Board for Human Biology, Immunology and Neuroscience
Contracting department
  • Center for Protein Research
Contracting faculty
  • Faculty of Health and Medical Sciences
Course Coordinator
  • Jesper Velgaard Olsen   (12-6f6a78756a77337471786a734568757733707a336970)

Prof. Jesper V. Olsen, Prof. Michael L. Nielsen, Prof. Chunaram Choudhary, Prof. Nils Mailand, Prof. Claudia Lukas, Prof. Guillermo Montoya, Ass.Prof. Jeremy A. Daniel, Ass.Prof. Jakob Nilsson

Saved on the 12-04-2024

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