Methods for mathematical modeling and computer simulation of sub cellular processes and functions. The main focus is on biochemical networks, enzyme kinetics and cell signaling, genetic networks, and switches, are covered, as is also ion channel dynamics and biological morphogenesis. Both dynamical and diffusion aspects will be covered.
DD2436 Modelling of Processes in Cell Biology 6.0 credits
This course has been discontinued.
Decision to discontinue this course:
No information inserted
Information per course offering
Course offerings are missing for current or upcoming semesters.
Course syllabus as PDF
Please note: all information from the Course syllabus is available on this page in an accessible format.
Course syllabus DD2436 (Autumn 2009–)Headings with content from the Course syllabus DD2436 (Autumn 2009–) are denoted with an asterisk ( )
Content and learning outcomes
Course contents
Intended learning outcomes
After the course, the student should be able to
- explain the useage of, and the assumptions behind biophysical and biochemical models and methods
- compute basic biophysical and biochemical entities in stochiometry, ion statics and ion dynamics, diffusion and cell compartments
- exemplify the usage of continious, stochastic or boolean models
- explain models for synapes and their plasticity and of networks of neurons
- use and develop simulation programs for genetic, biochemical, and neural networks
so that the student
- is able to explain the useage of, and the assumptions behind biological models
- in the working life can perform biological modeling and simulation work
Literature and preparations
Specific prerequisites
Single course students: 90 university credits including 45 university credits in Mathematics or Information Technology. English B, or equivalent.
Literature
To be announced at least 4 weeks before course start at course web page. Previous year: Fall et al., Computational Cell Biology, Springer Verlag.
Examination and completion
Grading scale
A, B, C, D, E, FX, F
Examination
- TEN2 - Examination, 4.5 credits, grading scale: A, B, C, D, E, FX, F
- LAB1 - Laboratory Work, 1.5 credits, grading scale: P, F
Based on recommendation from KTH’s coordinator for disabilities, the examiner will decide how to adapt an examination for students with documented disability.
The examiner may apply another examination format when re-examining individual students.
If the course is discontinued, students may request to be examined during the following two academic years.
In this course all the regulations of the code of honor at the School of Computer science and Communication apply, see: http://www.kth.se/csc/student/hederskodex/1.17237?l=en_UK.
Other requirements for final grade
Examination (TEN2; 4,5 university credits).
Laboratory assignments (LAB1; 1,5 university credits).
Examiner
No information inserted
Ethical approach
- All members of a group are responsible for the group's work.
- In any assessment, every student shall honestly disclose any help received and sources used.
- In an oral assessment, every student shall be able to present and answer questions about the entire assignment and solution.
Further information
Course room in Canvas
Registered students find further information about the implementation of the course in the course room in Canvas. A link to the course room can be found under the tab Studies in the Personal menu at the start of the course.
Offered by
Education cycle
Second cycle
Supplementary information
This course is a part of DD2435 Mathematical Modelling of Biological Systems and can not be combined with that course.
The biggest part of the teaching in this course takes place at Campus Valhallavägen, but some teaching take place at Alba Nova.