Course syllabus for Computational biology

Course syllabus adopted 2021-02-26 by Head of Programme (or corresponding).

Overview

  • Swedish nameBeräkningsbiologi
  • CodeFFR110
  • Credits7.5 Credits
  • OwnerMPCAS
  • Education cycleSecond-cycle
  • Main field of studyBioengineering, Chemical Engineering, Engineering Physics
  • DepartmentPHYSICS
  • GradingTH - Pass with distinction (5), Pass with credit (4), Pass (3), Fail

Course round 1

  • Teaching language English
  • Application code 11113
  • Block schedule
  • Open for exchange studentsYes

Credit distribution

0199 Examination 7.5 c
Grading: TH		 7.5 c
  • 17 Mar 2022 pm J
  • 10 Jun 2022 am J
  • 24 Aug 2022 am J

In programmes

Examiner

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Eligibility

General entry requirements for Master's level (second cycle)
Applicants enrolled in a programme at Chalmers where the course is included in the study programme are exempted from fulfilling the requirements above.

Specific entry requirements

English 6 (or by other approved means with the equivalent proficiency level)
Applicants enrolled in a programme at Chalmers where the course is included in the study programme are exempted from fulfilling the requirements above.

Course specific prerequisites

Analysis in one variable, linear algebra, basic skills in analysis in several variables, and programming.

Aim

The aim of the course is to introduce students to the mathematical modeling of biological systems. The emphasis is on macroscopic phenomena such as population growth, morphogenesis and spreading of infectious diseases. Also microscopic phenomena are introduced, such as biochemical reactions, population genetics, and molecular evolution. A major topic is the role played by chance in the dynamics of biological systems, giving rise to stochastic fluctuations that must be described with statistical methods. The goal is to introduce mathematicians, physicists, and engineers to current important questions in Biology that require quantitative methods to solve.

Learning outcomes (after completion of the course the student should be able to)

explain what can be expected of mathematical models of biological systems, and what cannot be expected

decide whether deterministic or stochastic models are required in a given context

simulate deterministic and stochastic models for biological systems on a computer, and understand and describe the implications of the results clear and logical fashion

understand the purpose and predictive power of models of evolution

reflect ethical aspects especially regarding population genetics


Content

Continuous and discrete population dynamics. Competition between species. Stochastic models for population growth.

Biochemical reactions. Reaction-diffusion systems. Morphogenesis. Traveling waves. Deterministic vs. stochastic models for chemical reactions.

Models for disease spreading- Deterministic and stochastic models.

Population genetics.

Synchronisation of oscillators in biological systems.

Organisation

Lectures, set of homework problems, examples classes, and written exam.

Literature

Lecture notes will be made available.

Recommended additional material: J. D. Murray, Mathematical Biology, 3rd edition, Springer, Berlin (2002)

Original research papers


Examination including compulsory elements

The final grade is based on three sets of homework assignments (60%) and a written examination (40%).

The course examiner may assess individual students in other ways than what is stated above if there are special reasons for doing so, for example if a student has a decision from Chalmers on educational support due to disability.