Grounding Gene Mentions with Respect to Gene Database Identifiers

Ben Hachey; Huy Nguyen; Malvina Nissim; Beatrice Alex; Claire Grover

Grounding Gene Mentions with Respect to Gene Database Identifiers

Ben Hachey, Huy Nguyen, Malvina Nissim, Beatrice Alex, Claire Grover

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract / Description of output

We describe our submission for task 1B of the BioCreAtIvE competition which is concerned with grounding gene mentions with respect to databases of organism gene identifiers. Several approaches to gene identification, lookup, and disambiguation are presented. Results are presented with two possible baseline systems and a discussion of the source of precision and recall errors as well as an estimate of precision and recall for an organism-specific tagger bootstrapped from gene synonym lists and the task 1B training data.

Original language	English
Title of host publication	Proceeding of the BioCreAtIvE (Critical Assessment of Information Extraction Systems in Biology) Workshop 2004
Number of pages	5
Publication status	Published - 2004

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seer,

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Alex_Hachey et al 2004 Grounding Gene MentionsAccepted author manuscript, 76.4 KB

http://biocreative.sourceforge.net/w_hachey.pdf

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title = "Grounding Gene Mentions with Respect to Gene Database Identifiers",

abstract = "We describe our submission for task 1B of the BioCreAtIvE competition which is concerned with grounding gene mentions with respect to databases of organism gene identifiers. Several approaches to gene identification, lookup, and disambiguation are presented. Results are presented with two possible baseline systems and a discussion of the source of precision and recall errors as well as an estimate of precision and recall for an organism-specific tagger bootstrapped from gene synonym lists and the task 1B training data.",

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author = "Ben Hachey and Huy Nguyen and Malvina Nissim and Beatrice Alex and Claire Grover",

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T1 - Grounding Gene Mentions with Respect to Gene Database Identifiers

AU - Hachey, Ben

AU - Nguyen, Huy

AU - Nissim, Malvina

AU - Alex, Beatrice

AU - Grover, Claire

PY - 2004

Y1 - 2004

N2 - We describe our submission for task 1B of the BioCreAtIvE competition which is concerned with grounding gene mentions with respect to databases of organism gene identifiers. Several approaches to gene identification, lookup, and disambiguation are presented. Results are presented with two possible baseline systems and a discussion of the source of precision and recall errors as well as an estimate of precision and recall for an organism-specific tagger bootstrapped from gene synonym lists and the task 1B training data.

AB - We describe our submission for task 1B of the BioCreAtIvE competition which is concerned with grounding gene mentions with respect to databases of organism gene identifiers. Several approaches to gene identification, lookup, and disambiguation are presented. Results are presented with two possible baseline systems and a discussion of the source of precision and recall errors as well as an estimate of precision and recall for an organism-specific tagger bootstrapped from gene synonym lists and the task 1B training data.

KW - seer,

M3 - Conference contribution

BT - Proceeding of the BioCreAtIvE (Critical Assessment of Information Extraction Systems in Biology) Workshop 2004

ER -

Grounding Gene Mentions with Respect to Gene Database Identifiers

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Keywords / Materials (for Non-textual outputs)

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Cite this