Concept recognition and the TREC genomics tasks

James G Caporaso, William A. Baumgartner, K. Bretonnel Cohen, Helen L. Johnson, Jesse Paquette, Lawrence Hunter

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2 Citations (Scopus)

Abstract

We applied concept recognition techniques to the Genomics track primary and secondary tasks. For the primary task, we developed a foundational information retrieval system which incorporated Entrez Gene entries and UMLS concepts for query expansion via phrasal and term boosting representations of synonyms. For the secondary task, we evaluated three conceptual features-mouse strain names, indexed MeSH terms, and normalized citations-in addition to two surface linguistic features-BOW and bigrams. Our final feature set yielded consistently high F-measures.

Original languageEnglish (US)
Title of host publicationNIST Special Publication
StatePublished - 2005
Externally publishedYes
Event14th Text REtrieval Conference, TREC 2005 - Gaithersburg, MD, United States
Duration: Nov 15 2005Nov 18 2005

Other

Other14th Text REtrieval Conference, TREC 2005
CountryUnited States
CityGaithersburg, MD
Period11/15/0511/18/05

Fingerprint

Information retrieval systems
Linguistics
Genes
Genomics

ASJC Scopus subject areas

  • Engineering(all)

Cite this

Caporaso, J. G., Baumgartner, W. A., Bretonnel Cohen, K., Johnson, H. L., Paquette, J., & Hunter, L. (2005). Concept recognition and the TREC genomics tasks. In NIST Special Publication

Concept recognition and the TREC genomics tasks. / Caporaso, James G; Baumgartner, William A.; Bretonnel Cohen, K.; Johnson, Helen L.; Paquette, Jesse; Hunter, Lawrence.

NIST Special Publication. 2005.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Caporaso, JG, Baumgartner, WA, Bretonnel Cohen, K, Johnson, HL, Paquette, J & Hunter, L 2005, Concept recognition and the TREC genomics tasks. in NIST Special Publication. 14th Text REtrieval Conference, TREC 2005, Gaithersburg, MD, United States, 11/15/05.
Caporaso JG, Baumgartner WA, Bretonnel Cohen K, Johnson HL, Paquette J, Hunter L. Concept recognition and the TREC genomics tasks. In NIST Special Publication. 2005
Caporaso, James G ; Baumgartner, William A. ; Bretonnel Cohen, K. ; Johnson, Helen L. ; Paquette, Jesse ; Hunter, Lawrence. / Concept recognition and the TREC genomics tasks. NIST Special Publication. 2005.
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