Physical Molecular Biology

5 credits

Syllabus, Master's level, 1MB449

Code
1MB449
Education cycle
Second cycle
Main field(s) of study and in-depth level
Biophysics A1N, Technology A1N
Grading system
Pass with distinction, Pass with credit, Pass, Fail
Finalised by
The Faculty Board of Science and Technology, 15 December 2023
Responsible department
Biology Education Centre

Entry requirements

Alternative 1: 120 credits within the Master's Programme in Molecular Biotechnology Engineering (300 credits) including Probability and Statistics, Chemical Thermodynamics and Cell Biology. Participation in Transform Methods and either Scientific Computing for Data Analysis or Scientific Computing II. Proficiency in English equivalent to the Swedish upper secondary course English 6.

Alternative 2: 10 credits within the Master's programme in Biophysics (120 credits) including participation in Computer Programming I, Introduction to Statistics for Life Sciences, Introduction to Modern Physics and Computational Methods for Scientific Applications. Proficiency in English equivalent to the Swedish upper secondary course English 6.

Alternative 3: 10 credits within the Master's programme in Biophysics (120 credits) including participation in Introduction to Biochemistry and Introduction to Molecular Biology. Proficiency in English equivalent to the Swedish upper secondary course English 6.

Learning outcomes

On completion of the course, the student should be able to:

  • formulate quantitative dynamics models of biochemical reaction schemes
  • explain the physical principles underlying speed and accuracy in enzymatic processes
  • simulate stochastic and deterministic reaction models.

Content

Reaction kinetics and enzyme kinetics: Reaction and diffusion control, enzyme catalysis, relaxation kinetics, separation of time scales. Irreversible thermodynamics: Energy dissipation, accuracy and proofreading in chemical reactions. Non-linear deterministic systems analysis: Phase space analysis, bifurcation theory. Stability and oscillations in biological regulatory systems. Mesoscopic kinetics: Stochastic chemical processes, description of stochastic biological systems with Master equations. Reaction-diffusion models: Description of spatial dependent kinetics with both partial differential equations and reaction-diffusion Master equations. The course contain programming assignments in MATLAB, describing some selected control system illustrating the difference between stochastic and deterministic analysis. Furthermore, a wet lab session is included, where some example from the course is studied using fluorescence microscopy.

Instruction

Lectures, classroom exercises, laboratory sessions and written assignments.

Assessment

Written examination (3 credits), laboratory sessions and written assignments (2 credits).

If there are special reasons for doing so, an examiner may make an exception from the method of assessment indicated and allow a student to be assessed by another method. An example of special reasons might be a certificate regarding special pedagogical support from the disability coordinator of the university.

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