Jaak Vilo		www.egeen.ee/u/vilo/

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Teaching and Research

• BIIT research group — Bioinformatics, Algorithmics, and Data Mining
• Institute of Computer Science, University of Tartu
• Teaching (courses, seminars, student supervison)
• Students and their completed projects
• Interested? Please contact me for research topics
• Publications : CiteSeer, PubMed, DBLP,
• Talks and presentations, forthcoming and past meetings
  
  • The Analysis of Patterns Bertinoro (Forlě-Cesena), Italy
• Keelevara: 30+ on-line dictionaries - Information retrieval
• Computer Science in Estonia

Quretec - data management solutions and bioinformatics

• Quretec - Biomedical IT company
• EGeen - clinical research organisation

Other

• ECCB steering committee member
• PC member: WABI 2006, WABI 2004, ISMB 2004, ISMB 2006, ISMB 2006, SocBin 2005, ...
• Activities: GRID in Estonia
• Societies: ACM, ISCB, SocBIN, ...

Expression Profiler - ep.ebi.ac.uk

• EPCLUST - Expression Profile Clustering and Analysis (XML UI; eptest; ep-sf@sourceforge)
• URLMAP - Map Form contents to other tools and databases (function, pathways etc)
• EP:GO - browser for GeneOntology
• GENOMES - Genome sequence and expression data extractor (Yeast)
• PATMATCH - Match patterns against the sequences, visualize match locations
• EP:PPI - Tool for analyzing large-scale protein-protein interaction data
• SEQLOGO - Align sequences; create PWM's; draw sequence logos
• SPEXS - Sequence Pattern EXhaustive Search
  • (Binaries and a rudimentary "manual" are here)
• Links to other Microarray data analysis tools, products, resources
• Microarray analysis and informatics @ EBI ;
• EBI Industry support group
  

Publications, meetings, on-line supplementary data etc.

• My publications
  • Queries: CiteSeer, PubMed, DBLP, ...
• Jaak Vilo: Pattern Discovery from Biosequences
  PhD Thesis, Department of Computer Science, University of Helsinki, Finland
  Series of Publications A, Report A-2002-3 Helsinki, November 2002, 149 pages
  ISSN 1238-8645; ISBN 952-10-0792-3 (paperback); ISBN 952-10-0819-9 (PDF)
  [Abstract] [PDF in E-Thesis] [local]
  
• Erdös number 3 (Trail: Paul Erdös, Bela Bollobas, Heikki Mannila, Jaak Vilo) ;-)
  
  

Past affiliations

• 1999-2002 European Bioinformatics Institute   (personal, microarray group)
• 1991-1999 Computer Science, University of Helsinki    (personal)
• 1990-1991 Institute of Cybernetics

Other projects from past and present

• KeeleWeb ee.www.ee - on-line dictionaries. Project became stagnated as no new materials were available to KeeleWeb. See further Keelevara.
• Predicting Gene Regulatory Elements in Silico on a Genomic Scale
• Yeast: Transcription Factor Combination Discoverer, TFCD
• Yeast on local machine
• Pratt and MDL-Pratt
• I used to work for the FDK (From Data to Knowledge) research group at the Department of Computer Science, University of Helsinki .
  [Machine Learning, Data Mining, Combinatorial Pattern Matching]
• Other old projects I have been involved with

Web links collected over the years...

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Jaak Vilo,