Announcements

Requirements

• Handout and homework assignments will be placed on the web. It is recommended that you read the handouts and try to address the assignments before class. Solutions to the assignments will be discussed in class and/or given on the web. It is required that you go over the solutions and understand them.
• Two take-home assignments will be given during the semester. At the end of the course there will be a final exam. Each one of the midterm assignments will determine 20% of the final score. The final exam will determine 60% of the score. Take-home assignment can be submitted in pairs.

Handouts

• Class of 28-02-07: Introduction to the facts of life and to R.
• Class of 7-03-07: We will spend some time introducing R. We may be able to start the discussion on inbreeding at a single locus. A summary of the processes of mitosis and meiosis can be found power-point presentation, which was contributed by Nir.
• Class of 14-03-07: We will start the discussion on inbreeding at a single locus.
• Class of 21-03-07: We will discuss in class brother-sister inbreeding. The section inbreeding at a single locus, that deals with the issue of inbreeding, is now extended to include the material on this issue.
• Class of 28-03-07: Kimura's probabilistic approach will be introduced and used in order to deal with the dynamics of reduction of heterozygosity in more complex populations. The discuss is summarized in Subsection 4.4 of inbreeding at a single locus. Kimura's paper is accessible at JSTOR.
• Class of 18-04-07: (Pending on strikes etc.) We will complete the discussion of Kimura's probabilistic approach for the dynamics of reduction of heterozygosity. The next subject is the recombination fraction in recombination inbred sets. The discuss is summarized in Inbreeding at Several Loci.
• Class of 12-06-07: We will start the investigation of dynamics in infinite populations. The first subject is the Hardy-Weinberg Equilibrium, which is discussed in Infinite Populations - Single Locus.
• Class of 19-06-07: We will finish discussing departure and testing departure from the Hardy-Weinberg Equilibrium, which is discussed in Infinite Populations - Single Locus.
• Class of 20-06-07: We will analyze the convergence to Linkage Equilibrium and deal with the estimation of Linkage Disequilibrium from a sample of genotypes. Both subjects are presented in Infinite Populations - Two Loci.
• R codes that were used in class: Introduction, Inbreeding at one locus, Inbreeding at several loci, Testing Hardy-Weinberg, and Estimating correlation

Assignments

• The assignment for the first part of the course is Question 5.1.
• The assignment for the second part of the course is Question 6.2.
• The final exam will take place on 17/7/2007, 9:00-11:00AM, at room 2303. A practice exam can be found here.

Useful Links

• R installation and help: CARN.
• Acrobat reader (PDF): The Adobe company.