CALBC silver standard corpus

Journal of Bioinformatics and Computational Biology

Volumn 8, Issue 1, 2010, Pages 163-179

  Rebholz Schuhmann, Dietrich ^a   Yepes, Antonio José Jimeno ^a   Van Mulligen, Erik M ^b   Kang, Ning ^b   Kors, Jan ^b   Milward, David ^c   Corbett, Peter ^c   Buyko, Ekaterina ^d   Beisswanger, Elena ^d   Hahn, Udo ^d  

^a EUROPEAN BIOINFORMATICS INSTITUTE   (United Kingdom)

^b ERASMUS MEDICAL CENTER   (Netherlands)

^c LINGUAMATICS LTD   (United Kingdom)

^d FRIEDRICH SCHILLER UNIVERSITY JENA   (Germany)

Author keywords

Biomedical text mining; Corpus generation; Named entity recognition

Indexed keywords

ARTICLE; BIOLOGY; COOPERATION; DATA MINING; EVALUATION; FACTUAL DATABASE; MEDICAL INFORMATION SYSTEM; STANDARD; STATISTICS;

COMPUTATIONAL BIOLOGY; COOPERATIVE BEHAVIOR; DATA MINING; DATABASES, FACTUAL; UNIFIED MEDICAL LANGUAGE SYSTEM;

EID: 77951575659     PISSN: 02197200     EISSN: None     Source Type: Journal    
DOI: 10.1142/S0219720010004562     Document Type: Article

References (16)

1. Smith L, Tanabe LK, Ando RJ, Kuo CJ, Chung IF, Hsu CN, Lin YS, Klinger R et al., Overview of BioCreAtIvE II gene mention recognition, Genome Biol 9S2, 2008.
2. Morgan AA, Lu Z, Wang X, Cohen AM, Fluck J, Ruch P, Divoli A et al., Overview of BioCreAtIvE II gene normalization, Genome Biol 9S3, 2008.
3. Rebholz-Schuhmann D, Arregui M, Gaudan S, Kirsch H, Jimeno A (2008) Text processing through Web services: Calling Whatizit, Bioinformatics 24(2):296-298.
4. Schuemie MJ, Jelier R, Kors JA, Peregrine: Lightweight gene name normalization by dictionary lookup, in: Proceedings of the BioCreAtIvE 2 Workshop, pp. 131-140 (2007).
5. Hahn U, Buyko E, Landefeld R, Mühlhausen M, Poprat M, Tomanek K, Wermter J, An overview of JCoRe, the JULIE Lab UIMA component repository, in Proceedings of the LREC'08 Workshop "Towards Enhanced Interoperability for Large HLT Systems: UIMA for NLP," 1-7, 2008.
6. Wermter J, Tomanek K, Hahn U, High-performance gene name normalization with GeNo, Bioinformatics 25(6):815-821, 2009.
7. Aronson AR, Effective mapping of biomedical text to the UMLS Metathesaurus: The MetaMap program, in Proceedings of the 2001 AMIA Symposium, pp. 17-21, 2001.
8. Settles B, Abner: An open source tool for automatically tagging genes, proteins, and other entity names in text. Bioinformatics 21(14):3191-3192, 2005.
9. Bonis J, Furlong LI, Sanz F, OSIRIS: A tool for retrieving literature about sequence variants, Bioinformatics 22(20):2567-2569, 2006.
10. Frantzi K, Ananiadou S, Mima H, Automatic recognition of multi-word terms, Int J Digital Libraries 3(2):117-132, 2000.
11. Hirschman L, Yeh A, Blaschke C, Valencia A, Overview of BioCreAtIvE: Critical assessment of information extraction for biology, BMC Bioinformatics 6(Suppl 1):S1, 2005.
12. Krallinger M, Morgan A, Smith L, Leitner F, Tanabe L, Wilbur J, Hirschman L, Valencia A, Evaluation of text-mining systems for biology: Overview of the Second BioCreAtIvE Community Challenge, Genome Biol 9(Suppl 2):S1, 2008.
13. Rebholz-Schuhmann D, Kirsch H, Nenadic G, IeXML: Towards a framework for interoperability of text processing modules to improve annotation of semantic types in biomedical text, in Proceedings of the Joint BioLINK and Bio-Ontologies SIG Meeting @ ISMB 2006, 2006.
14. Mikheev A, Learning part-of-speech guessing rules from lexicon: Extension to non-concatenative operations, in: Proceedings of the 16th International Conference on Computational Linguistics - COLING 1996, pp. 770-775, 1996.
15. Rahman A, Fairhurst MC, Multiple classifier decision combination strategies for character recognition: A survey, Int J Document Analysis Recognition 5:166-194, 2003.
16. Bodenreider O, McCray AT, Exploring semantic groups through visual approaches, J Biomed Inform 36(6):414-432, 2003.