SI1410 Basic Modeling in Biotechnology 6.0 credits
This class aims at giving the basis to create and solve simple models of biological phenomena. It is part of an effort to enhance your quantitative thinking about biological questions. The general plan is to:
1. Create simple models of the biological process of interest, i.e. translate the problems into mathematical formulation
2. Solve these models, analytically using pen and paper and/or MATLAB code and numerically using MATLAB.
3. Visualize the solutions graphically, vary model parameters to visualize their effect.
4. Analyze and discuss the outcomes of the model, and propose solutions to improve it.
Choose semester and course offering
Choose semester and course offering to see current information and more about the course, such as course syllabus, study period, and application information.
Content and learning outcomes
Course contents
Cells: growth, interaction, diffusion, neurons, biopolymers. Systems and disease. Genetics and Genomics.
Intended learning outcomes
- Create simple models for systems of relevance in biotechnology such as product formation in bacterial culture, metabolic processes in the cell and protein interaction.
- Solve these models both analytically and numerically by primarily using course materials Matlab codes with own edits.
- Visualize the solutions graphically.
- Analyze and discuss the plausability of the results.
Course disposition
Literature and preparations
Specific prerequisites
Knowledge corresponding to Calculus, Algebra and Geometry, SF1524 Basic numerical methods and programming.
Recommended prerequisites
Equipment
Literature
1. Ronald W. Shonkwiler, James Herod: Mathematical Biology: An Introduction with Maple and Matlab.
2. Joan Mata-Alvarez, David A. Mitchell: Mathematical modeling in Biotechnology
3. Erich Steiner: The Chemistry Math Book
Examination and completion
If the course is discontinued, students may request to be examined during the following two academic years.
Grading scale
Examination
- LAB1 - Laboration 1, 1.5 credits, grading scale: P, F
- LAB2 - Laboration 2, 1.5 credits, grading scale: P, F
- TEN1 - Exam, 3.0 credits, grading scale: A, B, C, D, E, FX, 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.
Other requirements for final grade
Completed laborations and passed written exam.
Opportunity to complete the requirements via supplementary examination
Opportunity to raise an approved grade via renewed examination
Examiner
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 web
Further information about the course can be found on the Course web at the link below. Information on the Course web will later be moved to this site.
Course web SI1410