Bioinformatics Research

The Bioinformatics, Algorithmics, and Data Mining group BIIT lead by prof. Jaak Vilo is a joint research group between the Department of Computer Science (University of Tartu), Quretec, and the Estonian Biocenter. Our main research topics and capabilities include the gene regulation, gene expression data analysis, biological data mining, systems biology, combinatorial pattern matching, developing software for biomedical research databases, as well as partnering in stem cell and cancer related projects. See the group poster (from Oct 2006),

Software

• MEM - Multi-Experiment-Matrix -- large-scale gene expression data queries and mining (Genome Biology 2009)
• g:Profiler family of tools for functional assessment of gene groups, gene ID mappings, orthology and expression similarity searches. (NAR web server issue 2007)
• KEGGanim - visualisation of high-throughput data on biological pathway charts (Bioinformatics, 2007)
• GraphWeb - a tool for mining large biological networks (NAR Web server issue 2008 - accepted)
• FunGenES data atlas
• More software tools

Publications

• Publications by BIIT members

People

• Group members
• New! Postdoc opportunities @BIIT.

News

• MEM - Multi-Experiment-Matrix -- large-scale gene expression data queries and mining (Genome Biology 2009)
• Postdoc opportunities @BIIT.Please contact Jaak Vilo.
• Please check our calendar for 2009, 2010.

Current Active Research Grants

• COBRED -- Colon and Breast cancer Diagnostics (2007-2010) LSHB-CT-2007-037730
• ENFIN, EU FP6 Network of Excellence (2005-2010) LSHG-CT-2005-518254
• ESNATS, Embryonic Stem Cell-Based Alternative Testing Strategies. Duration of Project: 5y (2008-2013).(news release)
• HEXANord, - HEalth teXt Analysis network in the Nordic and Baltic countries .(intranet)
• Target funding (2006-2011), grant no. SF0182712s06. (Abstract)
• Centre of Excellence in Computer Science, EXCS -- 2008-2015.
• ETF7437 (2008-2011) Multi-experiment gene expression data matrix analysis (MEM) (Abstract)
• STACC, BIIT contributes to STACC data integtration and mining
• BIIT-chair -- (Estonian Information Technology Foundation) grant for developing BIIT group and teaching of related subjects.
• All grants - current and previous

Main Contact

Prof. Jaak Vilo
Institute of Computer Science
University of Tartu
Liivi 2
50409 Tartu
ESTONIA

web: biit.cs.ut.ee