MutationFinder: A high-performance system for extracting point mutation mentions from text

J. Gregory Caporaso; William A. Baumgartner; David A. Randolph; K. Bretonnel Cohen; Lawrence Hunter

doi:10.1093/bioinformatics/btm235

MutationFinder: A high-performance system for extracting point mutation mentions from text

J. Gregory Caporaso
, William A. Baumgartner
, David A. Randolph
, K. Bretonnel Cohen
, Lawrence Hunter

Informatics, Computing, and Cyber Systems, School of

Research output: Contribution to journal › Article › peer-review

120 Scopus citations

Abstract

Discussion of point mutations is ubiquitous in biomedical literature, and manually compiling databases or literature on mutations in specific genes or proteins is tedious. We present an open-source, rule-based system, MutationFinder, for extracting point mutation mentions from text. On blind test data, it achieves nearly perfect precision and a markedly improved recall over a baseline.

Original language	English (US)
Pages (from-to)	1862-1865
Number of pages	4
Journal	Bioinformatics
Volume	23
Issue number	14
DOIs	https://doi.org/10.1093/bioinformatics/btm235
State	Published - Jul 15 2007

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/btm235

Cite this

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abstract = "Discussion of point mutations is ubiquitous in biomedical literature, and manually compiling databases or literature on mutations in specific genes or proteins is tedious. We present an open-source, rule-based system, MutationFinder, for extracting point mutation mentions from text. On blind test data, it achieves nearly perfect precision and a markedly improved recall over a baseline.",

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AU - Cohen, K. Bretonnel

AU - Hunter, Lawrence

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Y1 - 2007/7/15

N2 - Discussion of point mutations is ubiquitous in biomedical literature, and manually compiling databases or literature on mutations in specific genes or proteins is tedious. We present an open-source, rule-based system, MutationFinder, for extracting point mutation mentions from text. On blind test data, it achieves nearly perfect precision and a markedly improved recall over a baseline.

AB - Discussion of point mutations is ubiquitous in biomedical literature, and manually compiling databases or literature on mutations in specific genes or proteins is tedious. We present an open-source, rule-based system, MutationFinder, for extracting point mutation mentions from text. On blind test data, it achieves nearly perfect precision and a markedly improved recall over a baseline.

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MutationFinder: A high-performance system for extracting point mutation mentions from text

Abstract

ASJC Scopus subject areas

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