Article

Protein association discovery in biomedical literature

Authors:

Yueyu Fu,

Javed Mostafa,

Kazuhiro SekiAuthors Info & Claims

JCDL '03: Proceedings of the 3rd ACM/IEEE-CS joint conference on Digital libraries

Pages 113 - 115

Published: 27 May 2003 Publication History

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Abstract

Protein association discovery can directly contribute toward developing protein pathways; hence it is a significant problem in bioinformatics. LUCAS (Library of User-Oriented Concepts for Access Services) was designed to automatically extract and determine associations among proteins from biomedical literature. Such a tool has notable potential to automate database construction in biomedicine, instead of relying on experts' analysis. This paper reports on the mechanisms for automatically generating clusters of proteins. A formal evaluation of the system, based on a subset of 2000 MEDLINE titles and abstracts, has been conducted against Swiss-Prot database in which the associations among concepts are entered by experts manually.

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Cited By

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Jayadevaprakash NMukhopadhyay SPalakal MHaddad HOmicini AWainwright R(2005)Generating association graphs of non-cooccurring text objects using transitive methodsProceedings of the 2005 ACM symposium on Applied computing10.1145/1066677.1066713(141-145)Online publication date: 13-Mar-2005
https://dl.acm.org/doi/10.1145/1066677.1066713
Seki KMostafa J(2003)A Probabilistic Model for Identifying Protein Names and their Name BoundariesProceedings of the IEEE Computer Society Conference on Bioinformatics10.5555/937976.938046Online publication date: 11-Aug-2003
https://dl.acm.org/doi/10.5555/937976.938046

Index Terms

Protein association discovery in biomedical literature
1. Applied computing
  1. Computers in other domains
    1. Digital libraries and archives
  2. Life and medical sciences
2. Information systems

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Information & Contributors

Information

Published In

JCDL '03: Proceedings of the 3rd ACM/IEEE-CS joint conference on Digital libraries

May 2003

393 pages

ISBN:0769519393

Conference Chair:
Lois Delcambre
Oregon Health & Science University
,
General Chair:
Geneva Henry
Rice University
,
Program Chair:
Catherine C. Marshall
Microsoft Corporation

Publisher

IEEE Computer Society

United States

Publication History

Published: 27 May 2003

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JCDL03

Sponsor:

JCDL03: Joint Conference on Digital Libraries 2003

May 27 - 31, 2003

Texas, Houston

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JCDL '03 Paper Acceptance Rate 54 of 216 submissions, 25%;

Overall Acceptance Rate 415 of 1,482 submissions, 28%

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Cited By

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Jayadevaprakash NMukhopadhyay SPalakal MHaddad HOmicini AWainwright R(2005)Generating association graphs of non-cooccurring text objects using transitive methodsProceedings of the 2005 ACM symposium on Applied computing10.1145/1066677.1066713(141-145)Online publication date: 13-Mar-2005
https://dl.acm.org/doi/10.1145/1066677.1066713
Seki KMostafa J(2003)A Probabilistic Model for Identifying Protein Names and their Name BoundariesProceedings of the IEEE Computer Society Conference on Bioinformatics10.5555/937976.938046Online publication date: 11-Aug-2003
https://dl.acm.org/doi/10.5555/937976.938046

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Recommendations

Mining impact of protein modifications on protein-protein interactions from literature

An online literature mining tool for protein phosphorylation

Mining disease-specific molecular association profiles from biomedical literature: a case study