Concept recognition and the TREC genomics tasks

J. Gregory Caporaso; William A. Baumgartner; K. Bretonnel Cohen; Helen L. Johnson; Jesse Paquette; Lawrence Hunter

Concept recognition and the TREC genomics tasks

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

Informatics, Computing, and Cyber Systems, School of

Research output: Contribution to journal › Conference article › peer-review

2 Scopus citations

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 language	English (US)
Journal	NIST Special Publication
State	Published - 2005
Event	14th Text REtrieval Conference, TREC 2005 - Gaithersburg, MD, United States Duration: Nov 15 2005 → Nov 18 2005

ASJC Scopus subject areas

General Engineering

Cite this

@article{0991dd39a4c14fb0a771e9f1e1809ae8,

title = "Concept recognition and the TREC genomics tasks",

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.",

author = "\{Gregory Caporaso\}, J. and Baumgartner, \{William A.\} and \{Bretonnel Cohen\}, K. and Johnson, \{Helen L.\} and Jesse Paquette and Lawrence Hunter",

year = "2005",

language = "English (US)",

journal = "NIST Special Publication",

issn = "1048-776X",

publisher = "Institute of Electrical and Electronics Engineers Inc.",

note = "14th Text REtrieval Conference, TREC 2005 ; Conference date: 15-11-2005 Through 18-11-2005",

}

TY - JOUR

T1 - Concept recognition and the TREC genomics tasks

AU - Gregory Caporaso, J.

AU - Baumgartner, William A.

AU - Bretonnel Cohen, K.

AU - Johnson, Helen L.

AU - Paquette, Jesse

AU - Hunter, Lawrence

PY - 2005

Y1 - 2005

N2 - 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.

AB - 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.

UR - https://www.scopus.com/pages/publications/84873556637

UR - https://www.scopus.com/pages/publications/84873556637#tab=citedBy

M3 - Conference article

AN - SCOPUS:84873556637

SN - 1048-776X

JO - NIST Special Publication

JF - NIST Special Publication

T2 - 14th Text REtrieval Conference, TREC 2005

Y2 - 15 November 2005 through 18 November 2005

ER -

Concept recognition and the TREC genomics tasks

Abstract

ASJC Scopus subject areas

Other files and links

Fingerprint

Cite this