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Workshops on Modeling and Data Analysis
Sponsored by the Department of Biology, Colorado State University
with funding provided by the National Science Foundation

The Workshop Application is now CLOSED.
Applications for the workshop were due by March 15, 2011.

The 2011 Workshops on Ecology and Evolution of Infectious Diseases will be held at the University of California, Santa Barbara
June 22 - 25, 2011.

The workshops will follow the annual Ecology and Evolution of Infectious Diseases Meeting also being held at UCSB on
June 19 - 20, 2011.

Workshops are designed to provide graduate students, post-doctoral researchers and other researchers with skills for modeling and analysis of ecological and evolutionary processes affecting infectious disease dynamics. Emphasis is on analyses using the program R.

Separate workshops, offered in parallel, are designed to focus on either Ecology or Evolution of infectious diseases.

This year's workshop will follow the same format as previous years' workshops held at Cornell University, Colorado State University, University of Georgia, and Penn State University.

For an application form, please inquire to Applications for the workshop are due by March 15, 2011.

If you are interested in housing options for the workshop, click here.

Note: Funding from the National Science Foundation will cover the workshop fee and up to $500 travel assistance for 40 graduate students or post-doctoral researchers (funding is for US citizens, permanent residents, or non-US nationals in good standing at US universities only). Funding will be provided to individuals to attend either the Ecology or Evolution workshop one time, and we encourage previous attendees of either and Ecology or Evolution workshop to apply for the parallel workshop this year.

Workshop Instructors and Speakers

 Ecology Workshop

John Drake (University of Georgia), Stu Field (Colorado State University),
Ben Bolker (McMaster University), Matt Ferrari (Penn State University),
Aaron King
(University of Michigan), and Helen Wearing (Univ. of New Mexico)

Evolution Workshop
Colleen Webb (Colorado State University), Mike Antolin (Colorado State University)

Keynote Address

Roman Biek (University of Glasgow)


Ecology of infectious disease curriculum

The content of this workshop emphasizes mathematical models of disease ecology, basic and advanced statistics skills, and sessions on how to query long-term data sets for estimating parameters, exploring temporal fluctuations and investigating spatial patterns.
Specific goals include:

  1. To provide participants with skills for exploring long-term data trends and estimate population parameters (R0, ?) that would fit infectious disease models.
  2. To develop frameworks for observations or experiments needed to test hypotheses and analyze longitudinal and vertical data sets on disease incidence and parasite intensity.
A key to success of the workshop is assess the interests and abilities of participant before the workshop and organize complementary groups of 4-5 participants that include individuals with complementary data and skills. This will be accomplished by a questionnaire sent to registrants several weeks before the workshop, then organizing them into groups of five, matched by the
  1. types of data they have
  2. skills the students possess (programming in C++, Matlab, S-plus and R)
  3. general areas of interest expressed by the students (organisms;e.g. vertebrate (including humans) or invertebrate animals, plants;
    areas of analysis;e.g. time series, ODE modeling and stochastic realizations, spatial models)
In addition, we will provide standards for data files (computer-ready form: comma or tab delimited flat file in ASCII, Excel preferable).

Evolutionary biology of infectious diseases curriculum

This workshop will provide students with an understanding of relevant concepts in addition to practical phylogenetic and population genetic tools they can apply in their own research. The workshop will be particularly suitable for infectious disease ecologists interested in pathogen evolution and emergence, and for researchers in public health and the biomedical fields interested in how pathogens evolve both within hosts/patients (e.g. HIV), host immunogenetics, and how interventions (antimicrobial drugs, vaccinations) affect the evolution of pathogens. Specific goals include:
  1. To familiarize participants with analysis of host and pathogen genetics and phylogenetics, and relate these to identifying reservoir populations, detecting natural selection, and evaluating recombination and reassortment in pathogens.
  2. To provide practical training in experimental design and hypothesis testing frameworks that can be applied to the participants' genetic data, or to data sets collected from databases like GENBANK.

Again, a key to success will be to determine students' interests and abilities before the workshop. A questionnaire sent to registrants several weeks before the workshop will aid in organizing complementary groups of 4-5 participants, matched by

  1. types of data to share
  2. skills (knowledge of genetics, familiarity with phylogenetic and population genetic software
  3. general areas of interest (organisms: e.g. viruses, bacteria, or fungi; areas of analysis: e.g. relationships between emerging pathogens and wild reservoirs, host-specific selection).

We will provide format standards for data.



For the ecology syllabus, click here.
Please note, this is last year's syllabus. It will be updated for 2011.

For the evolution syllabus, click here.
Please note, this is last year's syllabus. It will be updated for 2011.