GeneTUKit: A software for document-level gene normalization

Bioinformatics

Volumn 27, Issue 7, 2011, Pages 1032-1033

  Huang, Minlie ^a   Liu, Jingchen ^a   Zhu, Xiaoyan ^a  

^a TSINGHUA UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER PROGRAM; DATA MINING; GENE; REFERENCE VALUE;

DATA MINING; GENES; REFERENCE VALUES; SOFTWARE;

EID: 79953325924     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btr042     Document Type: Article

References (11)

1. Cao,Z. et al. (2007) Learning to rank: from pairwise approach to listwise approach. In Proceedings of the 24th International Conference on Machine Learning, Corvallis, OR.
2. Carroll,H,D. et al. (2010) Threshold average precision (TAP-k): a measure of retrieval designed for bioinformatics. Bioinformatics, 26, 1708-1713.
3. Hakenberg,J. et al. (2008) Inter-species normalization of gene mentions with GNAT. Bioinformatics, 24, i126-i132.
4. Hanisch,D et al. (2005) ProMiner: rule-based protein and gene entity recognition. BMC Bioinformatics, 6 (Suppl. 1), S14.
5. Lu,Z. and Wilbur,W.J. (2010) Overview of BioCreAtIvE III gene normalization. In BioCreAtIvE Workshop, Bethesda, MD.
6. Neves,M,L. et al. (2010) Moara: a Java library for extracting and normalizing gene and protein mentions. BMC Bioinformatics, 11, 157.
7. Schwartz,A.S. and Hearst,M.A. (2003) A simple algorithm for identifying abbreviation definitions in biomedical text. In Proceedings of the 8th Pacific Symposium on Biocomputing, 3rd-7th January, World Scientific Publishing Co. Pte. Ltd, Kauai, Hawaii, pp. 451-462.
8. Settles,B. (2005)ABNER: an open source tool for automatically tagging genes, proteins, and other entity names in text. Bioinformatics, 21, 3191-3192.
9. Smith,L. et al. (2008) Overview of BioCreAtIvE II gene mention recognition. Genome Biol., 9 (Suppl. 2), S2.
10. Wermter,J. et al. (2009) High-performance gene name normalization with GENO. Bioinformatics, 25, 815-821.
11. Xu,H. et al. (2007) Gene symbol disambiguation using knowledge-based profiles. Bioinformatics, 23, 1015-1022.