Genetic analysis and molecular evolution, fall 2012
Type and time schedule
Lectures, home-exercises, computer class sessions.
Weeks 36-42, Tuesday 14-16, Thursday 14-16 B120 and computer class C128 Tuesday 16-18 and negotiable additional sessions.
Basic probabilistics and interest in bio-applications of statistics. This course is suitable for students with planned orientation to biometry and bioinformatics and also for other students interested in all-round-education on biological applications of statistical inference. In HU Bioinformatics Master´s program (MBI) this is one of the optionally compulsory courses and in Aalto-MBI a compulsory course.
Characteristics of molecules and inheritance as statistical and computational challenges.
Sequence databases - how to retrieve sequence information and use it for comparative purposes - multiple sequence alignment.
The neutral theory of molecular evolution - sequence evolution models and phylogeny inference.
Basics of genetic inheritance and population genetics.
4cr Exam, based on lectures and assignments. Exam will be in computer class and you have access to all material.
6cr Participating also in the Journal Club.
16-18, C128 (=computer class), This is for those who have not worked with sequence databases before. http://www.ncbi.nlm.nih.gov/.
Those who are familiar with NCBI-database working can (probably) do the initial part of Assignment 1 (1a, below) without attending this computer class session.
Read these: ,
14-16, B120, , Distance matrix phylogenies as a handout-copy.
Tue 18.9, 16-18, C128
, http://www.megasoftware.net/, http://www.hiv.lanl.gov/content/sequence/findmodel/findmodel.html.
Thu 20.9, 14-16, C128
, http://tolweb.org/tree/, http://www.timetree.org/, ,
Reserve time for further personal advise from here: http://doodle.com/6frkpgknw7m7exnr
Tue 25.9, 14-16, B120
Topics on molecular evolution will be completed later. Now we switch to topics on population genetics so that there will be enough time for assignment 2.
Thu 27.9, 14-16, B120
Population genetics continues.
Tue 2.10, 14-16, B120 and 16-18 C128
The basic selection model and Random genetic drift continues.
Tue 9.10, 16-18, C128
Assignment 1 presentations.
Thu 11.10, 12.30-14, B120, 14-16, C128. Note the extra time 12.30-14 (the slot is free for this lecture because there will not be Algorithms for bioinformatics lecture.)
Assignment 1 presentations continue.
Assignment 2c presentations.
EXAM in computer class C128, Tue 16. October, 12-20.
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