Syllabus for Physical Molecular Biology

Fysikalisk molekylärbiologi

  • 5 credits
  • Course code: 1MB449
  • Education cycle: Second cycle
  • Main field(s) of study and in-depth level: Technology A1N

    Explanation of codes

    The code indicates the education cycle and in-depth level of the course in relation to other courses within the same main field of study according to the requirements for general degrees:

    First cycle
    G1N: has only upper-secondary level entry requirements
    G1F: has less than 60 credits in first-cycle course/s as entry requirements
    G1E: contains specially designed degree project for Higher Education Diploma
    G2F: has at least 60 credits in first-cycle course/s as entry requirements
    G2E: has at least 60 credits in first-cycle course/s as entry requirements, contains degree project for Bachelor of Arts/Bachelor of Science
    GXX: in-depth level of the course cannot be classified.

    Second cycle
    A1N: has only first-cycle course/s as entry requirements
    A1F: has second-cycle course/s as entry requirements
    A1E: contains degree project for Master of Arts/Master of Science (60 credits)
    A2E: contains degree project for Master of Arts/Master of Science (120 credits)
    AXX: in-depth level of the course cannot be classified.

  • Grading system: Fail (U), Pass (3), Pass with credit (4), Pass with distinction (5)
  • Established: 2017-03-07
  • Established by:
  • Revised: 2021-03-26
  • Revised by: The Faculty Board of Science and Technology
  • Applies from: week 26, 2022
  • Entry requirements: 120 credits within the Master's Programme in Molecular Biotechnology Engineering including Transform Methods, Probability and Statistics, Chemical Thermodynamics and Microbiology. Participation in Scientific computing II.
    English language proficiency that corresponds to English studies at upper secondary (high school) level in Sweden ("English 6").
  • Responsible department: Biology Education Centre

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.

Reading list

The reading list is missing. For further information, please contact the responsible department.