Literature DB >> 12463863

NLP-based information extraction for managing the molecular biology literature.

Bisharah Libbus1, Thomas C Rindflesch.   

Abstract

We present research aimed at devising a tool for using natural language processing to identify and extract biomedical information from text for the purpose of assisting researchers in molecular biology manage large amounts of information. A pilot project based on the molecular genetics of diabetes demonstrates our ability to explore the interaction of genomic phenomena and clinical findings. We suggest the cooperation of this extracted information with systems for clustering text and constructing labeled networks of data.

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Year:  2002        PMID: 12463863      PMCID: PMC2244458     

Source DB:  PubMed          Journal:  Proc AMIA Symp        ISSN: 1531-605X


  17 in total

1.  Use of keyword hierarchies to interpret gene expression patterns.

Authors:  D R Masys; J B Welsh; J Lynn Fink; M Gribskov; I Klacansky; J Corbeil
Journal:  Bioinformatics       Date:  2001-04       Impact factor: 6.937

2.  A literature network of human genes for high-throughput analysis of gene expression.

Authors:  T K Jenssen; A Laegreid; J Komorowski; E Hovig
Journal:  Nat Genet       Date:  2001-05       Impact factor: 38.330

3.  Detecting gene relations from Medline abstracts.

Authors:  M Stephens; M Palakal; S Mukhopadhyay; R Raje; J Mostafa
Journal:  Pac Symp Biocomput       Date:  2001

4.  MedMiner: an Internet text-mining tool for biomedical information, with application to gene expression profiling.

Authors:  L Tanabe; U Scherf; L H Smith; J K Lee; L Hunter; J N Weinstein
Journal:  Biotechniques       Date:  1999-12       Impact factor: 1.993

5.  Putting the genes for type II diabetes on the map.

Authors:  K Almind; A Doria; C R Kahn
Journal:  Nat Med       Date:  2001-03       Impact factor: 53.440

6.  A set-covering approach to specific search for literature about human genes.

Authors:  T K Jenssen; S Vinterbo
Journal:  Proc AMIA Symp       Date:  2000

7.  Text-based discovery in biomedicine: the architecture of the DAD-system.

Authors:  M Weeber; H Klein; A R Aronson; J G Mork; L T de Jong-van den Berg; R Vos
Journal:  Proc AMIA Symp       Date:  2000

8.  Genomewide search for type 2 diabetes susceptibility genes in four American populations.

Authors:  M G Ehm; M C Karnoub; H Sakul; K Gottschalk; D C Holt; J L Weber; D Vaske; D Briley; L Briley; J Kopf; P McMillen; Q Nguyen; M Reisman; E H Lai; G Joslyn; N S Shepherd; C Bell; M J Wagner; D K Burns
Journal:  Am J Hum Genet       Date:  2000-05-02       Impact factor: 11.025

9.  EDGAR: extraction of drugs, genes and relations from the biomedical literature.

Authors:  T C Rindflesch; L Tanabe; J N Weinstein; L Hunter
Journal:  Pac Symp Biocomput       Date:  2000

10.  The Finland-United States investigation of non-insulin-dependent diabetes mellitus genetics (FUSION) study. II. An autosomal genome scan for diabetes-related quantitative-trait loci.

Authors:  R M Watanabe; S Ghosh; C D Langefeld; T T Valle; E R Hauser; V L Magnuson; K L Mohlke; K Silander; D S Ally; P Chines; J Blaschak-Harvan; J A Douglas; W L Duren; M P Epstein; T E Fingerlin; H S Kaleta; E M Lange; C Li; R C McEachin; H M Stringham; E Trager; P P White; J Balow; G Birznieks; J Chang; W Eldridge
Journal:  Am J Hum Genet       Date:  2000-10-13       Impact factor: 11.043

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  3 in total

1.  Automated extraction and normalization of findings from cancer-related free-text radiology reports.

Authors:  Burke W Mamlin; Daniel T Heinze; Clement J McDonald
Journal:  AMIA Annu Symp Proc       Date:  2003

2.  Semantic relations asserting the etiology of genetic diseases.

Authors:  Thomas C Rindflesch; Bisharah Libbus; Dimitar Hristovski; Alan R Aronson; Halil Kilicoglu
Journal:  AMIA Annu Symp Proc       Date:  2003

3.  MachineProse: an ontological framework for scientific assertions.

Authors:  Deendayal Dinakarpandian; Yugyung Lee; Kartik Vishwanath; Rohini Lingambhotla
Journal:  J Am Med Inform Assoc       Date:  2005-12-15       Impact factor: 4.497

  3 in total

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