EduXchange.nl
The full range of minors offered by the LDE institutions for the academic year 2025-2026 will be published on eduXchange at the beginning of March.
  1. Explore
  2. Master Level Computational Biology

Master Level Computational Biology

B-MCOBI17

About this course

During the course, the emphasis will be on composing and analysing exact models based on specific hypotheses. The results of the analyses offer an understanding of the original biological system. The models studied address fundamental questions from a variety of biological fields, including:

  • Multi-level evolution:
  • pre-biotic evolution
  • eco-evolutionary dynamics and spatial pattern formation
  • genome evolution (e.g. interaction between gene regulation and evolution)* Developmental dynamics:
  • pattern formations
  • morphogenesis and mechanical interactions between cells
  • evolution and morphogenesis* Immune system dynamics:
  • self/non-self discrimination
  • host-pathogen co-evolution* Behaviour:
  • self-structuring through local interactions
  • interface between learning and evolution
    A number of different model formalisms are used, namely:
    • (Non-linear) differential/difference equations (ODE and PDE)
    • Cellular automata machines
    • Individually oriented models
    • Evolutionary computation
      After completion the course, the student:
  • knows how computational models of dynamical systems can be used to investigate biological processes. (e.g. topics mentioned in 3). In particular;
    • the need of computational models
    • how to formulate computational models
    • how to analyze computational models
    • how to interpret results of computational models
  • knows implicit assumptions of various model formalisms. In particular:
    • ODE and PDE.
    • FSM and CA
    • event based models (e.g. Gillespie)
    • individual (particle) based models
    • evolutionary models
  • knows basic theory derived from computational modeling of
    • network dynamics (e.g. cell cycle, cell differentiation). In particular:
    • spatial pattern formation (e.g. spiral and chaotic waves)
    • multilevel evolution (genome evolution, eco-evolutionary dynamics)
    • multilevel morphogenesis (from genes, to cells to tissues to organism)
  • able to understand current literature using modeling. In particular
    • extracting the bottom line
    • evaluating the explicit and implicit assumptions of the models
    • relating the discussion to the theoretical knowledge gained in 3.

Learning outcomes

After completing the module the student is able to:

  • knows how computational models of dynamical systems can be used to investigate biological processes. (e.g.topics mentioned in 3).
    In particular;• the need of computational models• how to formulate computational models• how to analyze computational models• how to interpret results of computational models
  • knows implicit assumptions of various model formalisms.
    In particular:• ODE and PDE.• FSM and CA• event based models (e.g. Gillespie)• individual (particle) based models• evolutionary models
  • knows basic theory derived from computational modeling of• network dynamics (e.g. cell cycle, cell differentiation).
    In particular:• spatial pattern formation (e.g. spiral and chaotic waves)• multilevel evolution (genome evolution, eco-evolutionary dynamics)• multilevel morphogenesis (from genes, to cells to tissues to organism)
  • able to understand current literature using modeling. In particular• extracting the bottom line• evaluating the explicit and implicit assumptions of the models• relating the discussion to the theoretical knowledge gained in 3

Enrolment details

Do you study at Eindhoven University of Technology (TU/e) or Wageningen University and Research (WUR)? You can enrol via eduXchange.nl

Prior knowledge

You must meet the following requirements

  • Enrolled for one of the following degree programmes
  • Bioinformatics and Biocomplexity
  • Assigned study entrance permit for the master

Resources

  • Software Linux

Additional information

  • Credits
    ECTS 7.5
  • Level
    master
  • Selection course
    No
If anything remains unclear, please check the FAQ of Utrecht University.

Offering(s)

  • Start date

    3 February 2025

    • Ends
      11 April 2025
    • Term *
      Period 3
    • Location
      Utrecht
    • Instruction language
      English
    • Time info
      Monday 13:15 - 14:00, Monday 13:15 - 15:00, Monday 13:15 - 16:00, Monday 13:15 - 17:00, Monday 14:15 - 15:00, Monday 14:15 - 16:00, Monday 14:15 - 17:00, Monday 14:15 - 18:00, Monday 15:15 - 16:00, Monday 15:15 - 17:00, Monday 15:15 - 18:00, Monday 15:15 - 19:00, Monday 16:15 - 17:00, Monday 16:15 - 18:00, Monday 16:15 - 19:00, Monday 17:15 - 18:00, Monday 17:15 - 19:00, Monday 18:15 - 19:00, Tuesday 09:00 - 09:45, Tuesday 09:00 - 10:45, Tuesday 09:00 - 11:45, Tuesday 09:00 - 12:45, Tuesday 09:00 - 14:00, Tuesday 09:00 - 15:00, Tuesday 09:00 - 16:00, Tuesday 09:00 - 17:00, Tuesday 10:00 - 10:45, Tuesday 10:00 - 12:45, Tuesday 10:00 - 15:00, Tuesday 10:00 - 16:00, Tuesday 10:00 - 17:00, Tuesday 11:00 - 11:45, Tuesday 11:00 - 12:45, Tuesday 11:00 - 15:00, Tuesday 11:00 - 16:00, Tuesday 11:00 - 17:00, Tuesday 12:00 - 12:45, Tuesday 12:00 - 17:00, Tuesday 13:15 - 14:00, Tuesday 13:15 - 15:00, Tuesday 13:15 - 16:00, Tuesday 13:15 - 17:00, Tuesday 14:15 - 15:00, Tuesday 14:15 - 16:00, Tuesday 14:15 - 17:00, Tuesday 15:15 - 16:00, Tuesday 15:15 - 17:00, Tuesday 16:15 - 17:00, Thursday 09:00 - 09:45, Thursday 09:00 - 10:45, Thursday 09:00 - 11:45, Thursday 09:00 - 12:45, Thursday 09:00 - 14:00, Thursday 09:00 - 15:00, Thursday 09:00 - 16:00, Thursday 09:00 - 17:00, Thursday 10:00 - 10:45, Thursday 10:00 - 11:45, Thursday 10:00 - 12:45, Thursday 10:00 - 15:00, Thursday 10:00 - 16:00, Thursday 10:00 - 17:00, Thursday 11:00 - 11:45, Thursday 11:00 - 12:45, Thursday 11:00 - 15:00, Thursday 11:00 - 16:00, Thursday 11:00 - 17:00, Thursday 11:00 - 18:00, Thursday 12:00 - 12:45, Thursday 12:00 - 17:00, Thursday 12:00 - 18:00, Thursday 12:00 - 19:00, Thursday 13:15 - 14:00, Thursday 13:15 - 15:00, Thursday 13:15 - 16:00, Thursday 13:15 - 17:00, Thursday 13:15 - 18:00, Thursday 13:15 - 19:00, Thursday 14:05 - 19:00, Thursday 14:15 - 15:00, Thursday 14:15 - 16:00, Thursday 14:15 - 17:00, Thursday 14:15 - 18:00, Thursday 15:15 - 16:00, Thursday 15:15 - 17:00, Thursday 15:15 - 19:00, Thursday 16:15 - 17:00, Thursday 16:15 - 18:00, Thursday 16:15 - 19:00, Thursday 17:15 - 18:00, Thursday 17:15 - 19:00, Thursday 18:15 - 19:00
    Course is currently running

  • Start date

    2 February 2026

    • Ends
      10 April 2026
    • Term *
      Period 3
    • Location
      Utrecht
    • Instruction language
      English
    • Time info
      Monday 13:15 - 14:00, Monday 13:15 - 15:00, Monday 13:15 - 16:00, Monday 13:15 - 17:00, Monday 14:15 - 15:00, Monday 14:15 - 16:00, Monday 14:15 - 17:00, Monday 14:15 - 18:00, Monday 15:15 - 16:00, Monday 15:15 - 17:00, Monday 15:15 - 18:00, Monday 15:15 - 19:00, Monday 16:15 - 17:00, Monday 16:15 - 18:00, Monday 16:15 - 19:00, Monday 17:15 - 18:00, Monday 17:15 - 19:00, Monday 18:15 - 19:00, Tuesday 09:00 - 09:45, Tuesday 09:00 - 10:45, Tuesday 09:00 - 11:45, Tuesday 09:00 - 12:45, Tuesday 09:00 - 14:00, Tuesday 09:00 - 15:00, Tuesday 09:00 - 16:00, Tuesday 09:00 - 17:00, Tuesday 10:00 - 10:45, Tuesday 10:00 - 12:45, Tuesday 10:00 - 15:00, Tuesday 10:00 - 16:00, Tuesday 10:00 - 17:00, Tuesday 11:00 - 11:45, Tuesday 11:00 - 12:45, Tuesday 11:00 - 15:00, Tuesday 11:00 - 16:00, Tuesday 11:00 - 17:00, Tuesday 12:00 - 12:45, Tuesday 12:00 - 17:00, Tuesday 13:15 - 14:00, Tuesday 13:15 - 15:00, Tuesday 13:15 - 16:00, Tuesday 13:15 - 17:00, Tuesday 14:15 - 15:00, Tuesday 14:15 - 16:00, Tuesday 14:15 - 17:00, Tuesday 15:15 - 16:00, Tuesday 15:15 - 17:00, Tuesday 16:15 - 17:00, Thursday 09:00 - 09:45, Thursday 09:00 - 10:45, Thursday 09:00 - 11:45, Thursday 09:00 - 12:45, Thursday 09:00 - 14:00, Thursday 09:00 - 15:00, Thursday 09:00 - 16:00, Thursday 09:00 - 17:00, Thursday 10:00 - 10:45, Thursday 10:00 - 11:45, Thursday 10:00 - 12:45, Thursday 10:00 - 15:00, Thursday 10:00 - 16:00, Thursday 10:00 - 17:00, Thursday 11:00 - 11:45, Thursday 11:00 - 12:45, Thursday 11:00 - 15:00, Thursday 11:00 - 16:00, Thursday 11:00 - 17:00, Thursday 11:00 - 18:00, Thursday 12:00 - 12:45, Thursday 12:00 - 17:00, Thursday 12:00 - 18:00, Thursday 12:00 - 19:00, Thursday 13:15 - 14:00, Thursday 13:15 - 15:00, Thursday 13:15 - 16:00, Thursday 13:15 - 17:00, Thursday 13:15 - 18:00, Thursday 13:15 - 19:00, Thursday 14:05 - 19:00, Thursday 14:15 - 15:00, Thursday 14:15 - 16:00, Thursday 14:15 - 17:00, Thursday 14:15 - 18:00, Thursday 15:15 - 16:00, Thursday 15:15 - 17:00, Thursday 15:15 - 19:00, Thursday 16:15 - 17:00, Thursday 16:15 - 18:00, Thursday 16:15 - 19:00, Thursday 17:15 - 18:00, Thursday 17:15 - 19:00, Thursday 18:15 - 19:00
    Enrolment period not yet defined
* View scheduling details of Utrecht University
For guests registration, this course is handled by Utrecht University