# MATH 5355 Biomathematics II

- Textbook: An introduction to stochastic processes with applications to biology, Linda Allen 2011
- Syllabus
- Office Hours: MW 12:30-2:00, or by appointment

### Homework:

- Homework 1: Chapter 1, #1c, 2,4,11,12,19,34. Due Wednesday Feb. 1
- Homework 2: Chapter 2, #1, 2a, 10, 13. Due Monday Feb. 13
- Homework 3: Chapter 2, #14, 17, 20, 23. Due Wednesday Feb. 22
- Homework 4: Chapter 3, #2, 3, 12, 19. Find manuscript on biological application. Due Wednesday March. 8
- Homework 5: Chapter 5, #2, 3, 6, 7,13, 13, 14, 15, 18 Due Monday April. 3
- Homework 6: Chapter 6, #1, 2, Matlab Lab Exercises (below) Due Wednesday April. 19
- Homework 7: Chapter 8, #9a, 16a, Chapter 9, #13a, 15a Due Thursday May 11

### Project:

- Project Proposal: Due Monday March. 20
- Written Project, Monday May 8
- Oral Presentation, Friday May 12 (1:30 pm-4:00 pm)
- Project Rubric

### Slides:

- Chp.1 Probability Review
- Chp.1 Intro to Stochastic Processes
- Chp.2 Intro to DTMC
- Chp.3 Applications of DTMC
- Chp.5 Intro to CTMC
- Chp.6 CTMC Birth and Death Processes
- Chp.7 Applications of CTMC
- Chp.8 SDE

### Matlab Lab:

### Papers:

- Common Patterns of Nature: Frank 2009
- DTMC Application: Caswell 2009
- DTMC Application: Etterson 2009
- Gene Expression Models: Paulsson 2005
- Forest Succession Models: Shugart 1980
- SIR: O'Regan 2013
- SIR, Influenze: Xu 2006
- Bayesian Parameter Estimation: Huang 2005