Course syllabus

# Teoretisk biofysik

Theoretical Biophysics

## EXTQ01, 7,5 credits, A (Second Cycle)

## General Information

## Aim

## Learning outcomes

## Contents

## Examination details

## Admission

## Reading list

## Contact and other information

Theoretical Biophysics

Valid for: 2020/21

Decided by: PLED F/Pi

Date of Decision: 2020-04-01

Elective for: BME5-bf, F4, F4-tf, F4-bm, N4, Pi4

Language of instruction: The course will be given in English

Knowledge and understanding

For a passing grade the student must

*Cell composition and content:* The student can describe
the composition of the cell and its content of molecules and
molecular mechanisms.

*Fundamentals of statistics and statistical molecular
kinematics:* The student can describe and use statistical
distributions, in particular the Gaussian distribution, average
value and standard deviation. The student can describe and use the
Boltzmann distribution in various applications.

*Brownian motion, random walks and diffusion:* The student
can describe random walks and is able to derive their
characteristic behaviour. The student can demonstrate how random
walks give rise to the diffusion equation, and how diffusion is
related to viscosity. The student can describe various biological
applications of diffusion.

*Viscous media:* The student can explain the Reynolds
number and Stokes' law, and describe various biological
applications of viscous flows.

*Entropy, free energy and two-level systems:* The student
can explain the concepts statistical weight and entropy and their
relation. The student can describe free energy and calculate the
behaviour of two-level systems.

*Entropic forces:* The student can explain the
following concepts: osmotic pressure, hydrogen bonds, hydrophilic
and hydrophobic groups.

*Chemical forces:* The student can explain chemical
potential and describe chemical equilibrium. The student can
describe how micelles are formed and is familiar with various
applications.

*Macromolecules:* The student can describe the fundamental
structure formation of proteins and DNA.

*Molecular mechanisms and machines:* The student can
describe nerve signals or a molecular machine of his/her own
choice, e.g. motor proteins or ion channels.

Typical problems that the student should be able to handle:

- Applications of diffusion (Fick's law and the diffusion equation).
- Viscous flow in vascular networks (Hagen-Poiseuille's law).
- Extension vs. force for chains of given length and persistence length (wormlike chains).

Cell composition and content; fundamentals of statistics and statistical molecular kinematics; Brownian motion, random walks and diffusion; viscous media; entropy, free energy and two-level systems; entropic forces; chemical forces; macromolecules; molecular mechanisms and machines.

Grading scale: TH - (U,3,4,5) - (Fail, Three, Four, Five)

Assessment: Hand-in assignment, oral presentation and oral exam.

The examiner, in consultation with Disability Support Services, may deviate from the regular form of examination in order to provide a permanently disabled student with a form of examination equivalent to that of a student without a disability.

Parts

Code: 0117. Name: Seminar Problem.

Credits: 1,5. Grading scale: UG. Assessment: Passed seminar problem.

Code: 0217. Name: Hand-ins.

Credits: 2,5. Grading scale: TH. Assessment: Passed hand-ins.

Code: 0317. Name: Oral Examination.

Credits: 3,5. Grading scale: TH. Assessment: Oral examination.

Assumed prior knowledge: Compulsory courses, nanoscience engineering programme, or comparable courses.

The number of participants is limited to: No

The course might be cancelled: If the number of applicants is less than 5.

The course overlaps following course/s: TEK267

- Rob Phillips, Jane Kondev, Julie Therot, Hernan G. Garcia: Physical Biology of the Cell, second edition. Garland Science , 2013.

Course coordinator: Carl Troein, carl.troein@thep.lu.se

Course homepage: http://www.atp.lu.se/english/education/courses/theoretical_biophysics/