BMA 815B, Mathematical Modeling of Infectious Diseases
Course notes : [updated January 23rd]. An updated version has appeared, and will likely be updated again during the semester.
Slides on stochastic models: mostly the same material as in the notes, just in a different order.
Slides on networks in epidemiology
Slides on mosquito-borne disease, including dengue.
Papers:
- Hethcote (2000) : The mathematics of infectious diseases. SIAM Review paper (focuses more on math details)
- Heesterbeek et al (2015): Modeling infectious disease dynamics in the complex landscape of global health Science review paper (focuses more on epidemiology and the historical development of the field)
- Kermack and McKendrick (1927): A Contribution to the Mathematical Theory of Epidemics. Classic paper, includes the Bombay plague outbreak figure
- Anonymous (1978): Influenza in a boarding school. Paper describing a flu outbreak in a British school.
- Lloyd (2009): Paper on Non-exponential distributions in epidemic models and their impact on estimating R_0.
Other stuff:
- Least squares fitting of epidemic data: presentation relating to a computer practical on fitting SIR model to epidemic data using least squares. Code and other materials from the practical
- Matlab code to fit Bombay plague data. Data grabbed using Plot Digitizer.
- Notes on linearization of differential equation models and linear stability analysis.
- Code for stochastic models: sir_stoch.m, sir_stoch_next_event.m, stochastic_SIR_closed_five_realizations.m, sir_stoch_demog.c