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Literature DB >> 10902201

Automatic extraction of protein interactions from scientific abstracts.

J Thomas¹, D Milward, C Ouzounis, S Pulman, M Carroll.
1. SRI International, Cambridge.

Abstract

This paper motivates the use of Information Extraction (IE) for gathering data on protein interactions, describes the customization of an existing IE system, SRI's Highlight, for this task and presents the results of an experiment on unseen Medline abstracts which show that customization to a new domain can be fast, reliable and cost-effective.

Entities: Gene

Mesh：

Substances：
Proteins

Year: 2000 PMID： 10902201 DOI： 10.1142/9789814447331_0051

Source DB: PubMed Journal: Pac Symp Biocomput ISSN： 2335-6928

Keyword Cloud
Cited

18 in total

1. Associating genes with gene ontology codes using a maximum entropy analysis of biomedical literature.

Authors: Soumya Raychaudhuri; Jeffrey T Chang; Patrick D Sutphin; Russ B Altman
Journal: Genome Res Date: 2002-01 Impact factor: 9.043

2. Using text analysis to identify functionally coherent gene groups.

Authors: Soumya Raychaudhuri; Hinrich Schütze; Russ B Altman
Journal: Genome Res Date: 2002-10 Impact factor: 9.043

3. Extraction of protein interaction data: a comparative analysis of methods in use.

Authors: Hena Jose; Thangavel Vadivukarasi; Jyothi Devakumar
Journal: EURASIP J Bioinform Syst Biol Date: 2007

4. BioTagger-GM: a gene/protein name recognition system.

Authors: Manabu Torii; Zhangzhi Hu; Cathy H Wu; Hongfang Liu
Journal: J Am Med Inform Assoc Date: 2008-12-11 Impact factor: 4.497

5. Bayesian inference of protein-protein interactions from biological literature.

Authors: Rajesh Chowdhary; Jinfeng Zhang; Jun S Liu
Journal: Bioinformatics Date: 2009-04-15 Impact factor: 6.937

6. PreBIND and Textomy--mining the biomedical literature for protein-protein interactions using a support vector machine.

Authors: Ian Donaldson; Joel Martin; Berry de Bruijn; Cheryl Wolting; Vicki Lay; Brigitte Tuekam; Shudong Zhang; Berivan Baskin; Gary D Bader; Katerina Michalickova; Tony Pawson; Christopher W V Hogue
Journal: BMC Bioinformatics Date: 2003-03-27 Impact factor: 3.169

Automatic extraction of protein interactions from scientific abstracts.

1. Associating genes with gene ontology codes using a maximum entropy analysis of biomedical literature.

2. Using text analysis to identify functionally coherent gene groups.

3. Extraction of protein interaction data: a comparative analysis of methods in use.

4. BioTagger-GM: a gene/protein name recognition system.

5. Bayesian inference of protein-protein interactions from biological literature.

6. PreBIND and Textomy--mining the biomedical literature for protein-protein interactions using a support vector machine.

7. Textpresso: an ontology-based information retrieval and extraction system for biological literature.

Review 8. Recent advances in biomedical literature mining.

9. Protein interaction sentence detection using multiple semantic kernels.

10. Computer applications for prediction of protein-protein interactions and rational drug design.