Start	End	Speakers/Authors	Affiliation	TITLE
09:00	09:15	Christian Blaschke	CNB, Spain	Welcome
09:15	09:45	Robert Stevens	U. Manchester, UK	Report from BioOntologies SIG
09:45	10:15	Ian Donaldson, Joel Martin, Berry de Bruijn, Christopher W.V. Hogue	U. Toronto, CA	PreBIND and Textomy - Mining the Biomedical Literature for Protein-Protein Interactions Using a Support Vector Machine
10:15	10:45	Andy Fulmer, Jun Xu, Steven Zhao	Procter & Gamble, US	An Overview of Text Mining in the Biology Domain at P&G
10:45	11:00	BREAK
11:00	11:15	George Demetriou, Robert Gaizauskas	U. Sheffield, UK	Corpus Resources for Development and Evaluation of a Biological Text Mining System
11:15	11:30	Yuka Tateisi, Tomoko Ohta, Jin-dong Kim, Huaquing Hong, Su Jian, Jun-ichi Tsujii	CREST, Japan Science and Technology Corporation	The GENIA Corpus: MEDLINE Abstracts Annotated with Linguistic Information
11:30	11:45	Seth Kulick, Mark Liberman, Andrew Schein	U. Pennsylvania, US	Shallow Semantic Annotation of Biomedical Corpora for Information Extraction
11:45	12:00			Discussion about the creation and use of text corpora
12:00	13:00	LUNCH
13:00	13:30	Maria Samsonova	St.Petersburg State Polytechnical University	Processing of the Natural Language Queries to a Relational Database
13:30	13:45	Tony C. Smith, John G. Cleary	U. of Waikato, NZ	Automatically Linking MEDLINE Abstracts to the Gene Ontology
13:45	14:00	Yoshimasa Tsuruoka, Teruyoshi Hishiki, Osamu Ogasawara, Kousaku Okubo	CREST, Japan Science and Technology Corporation	Integration of Diverse Knowledge and Data into Biomedical Knowledge Matrices
14:00	14:15	Eunji Yi, Gary G. Lee, Soo-Jun Park	Pohang U. of Science and Technology, Korea	HMM-based Protein Name Recognition with Edit Distance Using Automatically Annotated Corpus
14:15	14:30			Discussion
14:30	15:00	BREAK
15:00	15:15	Francisco M. Couto, Mario J. Silva, Pedro Coutinho	U of Lisbon, Portugal	Curating Extracted Information Through the Correlation between Structure and Function
15:15	15:30	Rune Linding, Peter O'Hanlon, Ulrich Reincke, Toby Gibson,	EMBL	Profiling and Classification of Scientific Documents with SAS Text Miner
15:30	15:45			Discussion
15:45	16:15	Alex Yeh, Lynette Hirschman, Alex Morgan	MITRE, US	BioCreAtIvE: Entity Extraction
16:15	16:45	Christian Blaschke, Alfonso Valencia	CNB, Spain	BioCreAtIvE: Functional Extraction
16:45	17:30			Summary and discussion

The venue was held together with ISMB03, thus the Text-Mining registration was as well along with the ordinary ISMB03 registration. ISMB conference rates were extended to cover the extra day required to attend this meeting.

Members of the text data mining community were encouraged to participate in this meeting and also to submit short papers for presentation. Special emphasis was placed on the use of text mining techniques in the discovery of highly non-trivial, novel information in biology, including relationships at the molecular, biochemical and cellular levels.

Abstracts in the following areas were submitted:

• Biological discoveries independently supported by other experimental information using text mining.
• Annotated corpora of biological text for the benchmarking of existing method.
• Approaches for database maintenance and integrity using text mining Standardization and evaluation of methods for information extract.
• Standardization and evaluation of methods for information extraction including algorithms (e.g. full parsers) and databases (e.g. portable ontologies).

• Platform presentations only.
• Submit abstracts by May 15, 2002.
• Decisions by June 1, 2002.
• Submissions to Lynette Hirschman .
• Acceptable formats: PDF, postscript, RTF, MS.
• Length: 2-4 page for abstract.
• PLEASE include name, contact details, affiliation.
  
  

last update: 2003/07/31
© by Martin Krallinger
martink@cnb.uam.es