Biological Sciences Seminar: Topics in Parasitology and Vector
Spring Semester 2010
This course is cross-listed in the College of Science Biology
Department (BIOS60579) and the College of Engineering Computer
Science Department (CSE60239). The course will cover
computer-modeling techniques for simulating the behavior of
biological and public health systems. The primary approach will be
the individual-based modeling method (sometimes called the
agent-based approach). Special focus will be given to modeling
various biological systems: for example, the epidemiology of
malaria, population ecology, evolutionary dynamics, microbial
ecology, genetic regulatory networks, animal behavior,
developmental biology, etc. Topics include methods for modeling and
simulation, statistical distributions, random variate generation,
animation, visualization, design of simulation experiments,
verification and validation of simulations, and analysis of
results. Biological Sciences students will work on collaborative
projects with computer science majors. Students will be expected to
learn about 1) simulation and modeling, 2) to help define
biological problems for modeling and simulation, and 3) to help
with verification, validation and interpretation of results.
(Computer programming on course projects will be done by the
computer science students.) A major objective of the course will be
to compare the performance of specific biological models when
simulated through individual-based versus classical
Collins: Tuesday/Thursday, 10:45 - 11:45, and by appointment
Madey: Tuesday/Thursday, 10:45 - 11:45, and by appointment
Tuesday/Thursday, 9:30A - 10:45A, DeBartolo Hall 129
No formal textbook will be required. Online articles and research
papers will compose the course readings.
The goals of this course include: 1) the student will learn how (in
collaboration with biological science students) to define, design,
develop, implement and analyze computer simulations of biological
systems, 2) learn about languages, libraries and tools for building
simulations, and 3) how to design simulation experiments, verify
and validate simulations, and to interpret results of computer
simulation based experiments.
CSE60239: Graduate student in CSE (required), and any course in
statistics or probability (suggested but optional).
BIOS60579: Biology major (required), and any course in statistics
or probability (suggested but optional).
Course content will be project driven. Multiple modeling and
simulation projects will be assigned. At least one large project
will be assigned requiring the preparation of research paper.
Biology students will be expected to help specify and design models
& simulations, execute the simulations, and to interpret and
analyze simulation output.