Teacher: Sirkka-Liisa Varvio
Scope: 5-10 cr
Type: intermediate / advanced studies
Teaching: lectures and working in computer class
Teaching schedule: intensive teaching period in August, computer class C128, 12-16 in Thu 25.8, Fri 28.8, Mon 29.8, Wed 31.8, and additional times to be negotiated.
Assignments during the intensive period => 5 cr option of the course. Additional assignments/project after this period => another 5 cr.
Topics: The goal is to provide understanding of life through statistical and computational analyses of molecular information. Models of molecular evolution and phylogeny inference, distance matrix methods, maximum likelihood, bayesian and network inference. Past, or traditional, practice on phylogenetics has been to describe relationships among species within the disciplines systematics and taxonomy. Today the scope is much wider. Phylogenetics is used as a necessary tool in all kind of bioscience research questions: relationships among genes, gene families, alleles, cell lines, various genomic components, histories of populations, evolutionary and epidemiological dynamics of bacteria and viruses, etc. Phylomics is the natural extension of genomics and metagenomics, phylotyping the current way of understanding ecosystems within and outside organisms (environments) and evolutionary thinking is a complementary framework to medical genetics. Statistical and computational approaches, based on predictions derived from population genetics theory, aim at dissecting neutral (stochastic) and selected (darwinian natural selection) components of genetic diversity.
Course assignments will be from human, animal, virus, bacteria data.
Prerequisites: At least intermediate level of probability and statistical inference courses. No familiarity with bio-studies expected as prerequisites.