Idaho Math/Bio 563
WSU Math 563 Bio 566
Mathematical Genetics
Fall 2011
The first and homework assignment is due Sept. 26. The second homework assignment is due Oct. 3. The third homework assignment is due Oct. 17 The fourth homework assignment is due Oct. 31 The fifth homework assignment is due Nov. 7 The sixth homework assignment is due Nov. 16 The seventh homework assignment is due Nov. 30 Student projects and reading materials are posted on the syllabus. Coalescent Theory Slides Approximate Bayesian Computation 
Homework 1 Homework 2 Homework 3 Homework 4 Homework 5 Homework 6 Homework 7 
Syllabus,
Reading Assignments and Homework Handouts Textbooks REQUIRED Evolutionary Theory Mathematical and Conceptual Foundations by Sean Rice A list of typos for Rice Suggested reference books Gene Genealogies, Variation and Evolution by Hein, Schierup and Wiuf Coalescent Theory, An Introduction by John Wakeley 



Course Goals
(1) Gain exposure to, and experience with, major topics and methods in mathematical genetics; (2) Survey
classical and
contemporary literature in mathematical genetics. Course format: We plan to achieve the goals of the course through a series of instructor led “workshops” topics in mathematical genetics during the first part of the course and student led group discussions during the second part of the course. One or two readings will usually be assigned per topic: one for background and a second for discussion. For workshops, an instructor will briefly motivate the topic, outline the analyses, and summarize the main results. The class will then work through the reading(s) as a group, stopping to clarify steps, methods, or concepts that are ambiguous. Ideally, students who understand a step/method/concept will do the clarifying. Of course, the instructors will help regulate the flow of discussion and contribute lucid explanations as necessary! The instructors will also suggest homework problems which all students will be expected to attempt. For this workshop format to succeed, it is critical that every student works to understand the readings prior to class. If, in the course of reading the material, you don’t understand something (e..g., a term, concept, manipulation, or technique) make a note of it and go through the remaining material as best you can. Be sure to bring your notes to class. Studentled group
discussions
will cover topics chosen by students (topics—which may involve original
research—must be preapproved by the instructors). Leaders should
prepare handouts and readings that their fellow students will read
prior
to the discussion.


Internet Resources Java
Demonstrations of
List
of phylogenetic software 
Grading
Criteria
Half of the grade in this course will based on the quality of a student planned and executed group discussion during the second part of the course. The other half of your grade will be based on inclass participation. Your participation grade will be based on (a) attendance [10%], (b) the contributions you make during discussions (including asking and answering questions, and making thoughtful comments) [10%], and (c) attempting and solving any assigned homework problems [30%].
Reading
Assignments: Readings
will be assigned from current and classical literature. You will
be expected to have read the assigned paper and participate in
discussing
the material. You will be assigned four or five questions about
the
reading. You will be required to answer each of the
questions. Web Resources To your left are
a number
of interesting web sites with information and computer
software.
If you find any web sites that you feel would be of interest to
your
instructors and/or fellow students, let me know (joyce@uidaho.edu).
I would be happy to post them.
Parking
information: For information about WSU parking visit http://www.parking.wsu.edu/ WSU Academic Integrity Statement: Academic dishonesty will not be tolerated in this course. Any student who acts unethically will be given an F for the course and referred to the Office of Student Conduct. For information, see: http://www.conduct.wsu.edu/default.asp?PageID=343 http://www.wsulibs.wsu.edu/plagiarism/main.html
WSU Students with Disabilities: Reasonable accommodations are
available for students with
a documented disability. If you have a disability and may need
accommodations
to fully participate in this class, please visit the Disability
Resource Center
(DRC). All accommodations MUST be approved through the DRC (Washington
Building, Room 217). Please stop by or call 5093353417 to make an
appointment
with a disability specialist. Campus Safety/Emergency Information: In the interest of campus safety and emergency procedures, please become familiar with the information available on the WSUprovided websites. Also, please register your emergency contact information at myWSU. • http://safetyplan.wsu.edu, Campus Safety Plan • http://oem.wsu.edu/emergencies, Emergency management web site • http://alert.wsu.edu, WSU Alert site. 