BIIT Research group

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.

News

Summary of talks and papers at ISCB-Asia/SCCG 2012 published in BMC Genomics (29.4.2013)
pyliftover python package released.
matplotlib-venn python package released.
Probabilistic file fingerprinting for big data published in BMC Genomics (15.2.2013)
Secure handling of genetic data for GWAS studies published in Bioinformatics (14.2.2013)
g:Profiler 2011 published by NAR (access g:Profiler)
MEM - Multi-Experiment-Matrix -- large-scale gene expression data queries and mining (Genome Biology 2009)
Embryonic stem cells database (ESCDb) (PLoS One 2010)
www.eid.ee
We have 2-3 Postdoc vacancies at University of Tartu. Please contact Jaak Vilo
BIIT is a partner in Center of Translational Genomics
Calendar: 2011, 2010

Software

GOsummaries R package for visualising GO enrichment results as wordclouds is available at CRAN
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)
FunGenES data atlas
More software tools