**MATE 6685 Computer Applications in Biology**

**Topics **

- Course introduction
- Biochemical kinetics
- Population Dynamics
- Infectious Diseases
- Ion transport in an epithelial cell
- Numerical integration

** Homework assignments**

- Assignment 1 (September 1)
- Assignment 1.5 (October 2)
- Assignment 2 (October 9)
- Assignment 3 (November 6)
- Final project (See Moodle's page for instructions)
- Oral presentations (December 9 and 11)
- Written report (December 16)

**Supplemental material**

MATLAB scripts

- Format for printing in the screen
- Function to sum a sequence of numbers
- Function to plot graphs
- Random Fibonacci sequence
- Fixed-point iterations
- Mandelbrot set
- ODE example:Lorenz equation
- Two molecular states
- Enzyme kinetics
- Glucose transporter GLUT, dynamic
- Glucose transporter GLUT, static
- Glucose transporter GLUT, kinetics
- Na+-Glucose cotransporter
- Lotka-Volterra model
- Populations in competition model
- Populations in competition, draw phase plane
- SIRS model
- SIRS model, draw phase plane
- Tuberculosis model
- Model of ion transport in an epithelial cell
- A test problem for different methods
- Predator-prey model with two different integration methods