Bio Text Mining - Jena University Language & Information Engineering (JULIE) Lab

Friedrich Schiller University (FSU) - School of Philosophy

Udo Hahn (Group Leader)

Development of text analytics tools for automatic biomedical information extraction (text mining) and automatic database generation. Ontology engineering for the life sciences. JULIE Lab is the coordinator of BOOTStrep, a STREP project (FP6), and StemNet, an e-Science Call project (BMBF). Udo Hahn received the IBM UIMA Innovation Award 2007 and the IBM Unstructured Information Analytics Innovation Award 2008.

For more information look at the JULIE Lab page of the Friedrich Schiller University (FSU).

Selected Publications

• Rebholz-Schuhmann D, Yepes AJJ, van Mulligen EM, Kang N, Kors J, Milward D, Corbett P, Buyko E, Beisswanger E, Hahn U:
  The CALBC Silver Standard Corpus.
  J Bioinform Comput Biol. 2010; 8:163-79.
• DeLuca D, Beisswanger E, Wermter J, Horn P, Hahn U, Blasczyk R:
  MaHCO: An Ontology of the Major Histocompatibility Complex for Immunoinformatic Applications and Text Mining.
  Bioinformatics. 2009; 16:2064-70.
• Wermter J, Tomanek K, Hahn U:
  High-Performance Gene Name Normalization with GeNo.
  Bioinformatics. 2009; 6:815-21.
• Altman RB, Bergman CM, Blake J, Blaschke C, Cohen A, Gannon F, Grivell L, Hahn U, Hersh W, Hirschman L, Jensen LJ, Krallinger M, Mons B, O'Donoghue SI, Peitsch MC, Rebholz-Schuhmann D, Shatkay H, Valencia A:
  Text mining for biology - the way forward: opinions from leading scientists.
  Genome Biol. 2008; 9:S7.
• Beisswanger E, Schulz S, Stenzhorn H, Hahn U:
  BioTop: an upper domain ontology for molecular biology - a description of its current structure, contents, and interfaces to OBO ontologies.
  Applied Ontology. 2008; 3:205-12.