The availability of a large mass of genomic data will make it possible to study in detail the genomic landscape in humans and other mammalian organisms and to investigate the variation both within and between species. The CompGenome project will develop and apply computational tools for describing the genomic and functional variation between individuals and between species, and study the significance of these variations for the functions of genes. This information will eventually be used to understand the potential relationships of such variations in the genome landscape and complex diseases. In particular, the project will develop (a) tools for the hierarchical description of the haplotype structure of human (and other mammalian) genomes, (b) techniques for the identification of rearrangements, duplications, and other large-scale variations in genomes; (c) methods for trait-cluster-based multiple locus testing in complex traits, and (d) tools for analyzing the relationship between transcript profiles and sharing of genome segments.
In 2005 the work has continued in several directions. Segmentation algorithms have been further developed and applied to genome data. Modeling haplotypes with a hidden Markov model led to a new technique for the haplotype reconstruction (phasing) problem. There has been also progress in developing computational methods for the identification of rearrangements from haplotype data.
People
- Heikki Mannila, project leader
- Aristides Gionis
- Niina Haiminen
- Mikko Koivisto
- Jussi Kollin
- Jaana Wessman
Research groups
-
Data Analysis Prof. Heikki Mannila, Prof. Hannu Toivonen
See www.cs.helsinki.fi/group/genetics for further information and publications.
Last updated on 10 Dec 2007 by Teemu Mäntylä - Page created on 13 Jan 2007 by Webmaster