메뉴 건너뛰기




Volumn 27, Issue 13, 2011, Pages

Discovering and visualizing indirect associations between biomedical concepts

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; ARTIFICIAL INTELLIGENCE; DATA MINING; INTERNET; MEDICAL INFORMATICS; MEDLINE; UNITED STATES;

EID: 79959437702     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btr214     Document Type: Article
Times cited : (95)

References (55)
  • 1
    • 56649091413 scopus 로고    scopus 로고
    • All-paths graph kernel for protein-protein interaction extraction with evaluation of cross-corpus learning
    • Airola, A. et al. (2008) All-paths graph kernel for protein-protein interaction extraction with evaluation of cross-corpus learning. BMC bioinformatics, 9 (Suppl. 11), S2.
    • (2008) BMC bioinformatics , vol.9 , Issue.SUPPL. 11
    • Airola, A.1
  • 2
    • 77953917404 scopus 로고    scopus 로고
    • Event extraction for systems biology by text mining the literature
    • Ananiadou, S. et al. (2010) Event extraction for systems biology by text mining the literature. Trends in Biotechnol., 28, 381-390.
    • (2010) Trends in Biotechnol. , vol.28 , pp. 381-390
    • Ananiadou, S.1
  • 3
    • 85121797056 scopus 로고    scopus 로고
    • Extracting complex biological events with rich graph-based feature sets
    • Association for Computational Linguistics
    • Björne, J. et al. (2009) Extracting complex biological events with rich graph-based feature sets. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 10-18.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 10-18
    • Björne, J.1
  • 4
    • 77954190136 scopus 로고    scopus 로고
    • Complex event extraction at PubMed scale
    • Bjorne, J. et al. (2010) Complex event extraction at PubMed scale. Bioinformatics, 26, i382-i390.
    • (2010) Bioinformatics , vol.26
    • Bjorne, J.1
  • 5
    • 0036522638 scopus 로고    scopus 로고
    • The frame-based module of the suiseki information extraction system
    • Blaschke, C. and Valencia, A. (2002) The frame-based module of the suiseki information extraction system. IEEE Intell. Syst., 17, 14-20.
    • (2002) IEEE Intell. Syst. , vol.17 , pp. 14-20
    • Blaschke, C.1    Valencia, A.2
  • 7
    • 13344278672 scopus 로고    scopus 로고
    • Content-rich biological network constructed by mining pubmed abstracts
    • Chen, H. and Sharp, B. (2004) Content-rich biological network constructed by mining pubmed abstracts. BMC Bioinformatics, 5, 147.
    • (2004) BMC Bioinformatics , vol.5 , pp. 147
    • Chen, H.1    Sharp, B.2
  • 8
    • 84977447646 scopus 로고    scopus 로고
    • High-precision biological event extraction with a concept recognizer
    • Association for Computational Linguistics
    • Cohen, K.B. et al. (2009) High-precision biological event extraction with a concept recognizer. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 50-58.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 50-58
    • Cohen, K.B.1
  • 9
    • 70449426357 scopus 로고    scopus 로고
    • Goweb: a semantic search engine for the life science web
    • Dietze, H. and Schroeder, M. (2009) Goweb: a semantic search engine for the life science web. BMC Bioinformatics, 10 (Suppl. 10), S7.
    • (2009) BMC Bioinformatics , vol.10 , Issue.SUPPL. 10
    • Dietze, H.1    Schroeder, M.2
  • 10
    • 18744396693 scopus 로고    scopus 로고
    • BioIE: extracting informative sentences from the biomedical literature
    • Divoli, A. and Attwood, T.K. (2005) BioIE: extracting informative sentences from the biomedical literature. Bioinformatics, 21, 2138-2139.
    • (2005) Bioinformatics , vol.21 , pp. 2138-2139
    • Divoli, A.1    Attwood, T.K.2
  • 11
    • 48449105128 scopus 로고    scopus 로고
    • CoPub: a literature-based keyword enrichment tool for microarray data analysis
    • Frijters, R. et al. (2008) CoPub: a literature-based keyword enrichment tool for microarray data analysis. Nucleic Acids Res., 36, W406-W410.
    • (2008) Nucleic Acids Res. , vol.36
    • Frijters, R.1
  • 12
    • 78049427383 scopus 로고    scopus 로고
    • Literature mining for the discovery of hidden connections between drugs, genes and diseases
    • Frijters, R. et al. (2010) Literature mining for the discovery of hidden connections between drugs, genes and diseases. PLoS Comput. Biol., 6, e1000943.
    • (2010) PLoS Comput. Biol. , vol.6
    • Frijters, R.1
  • 13
    • 78149321695 scopus 로고    scopus 로고
    • Recent progress in automatically extracting information from the pharmacogenomic literature
    • Garten, Y. et al. (2010) Recent progress in automatically extracting information from the pharmacogenomic literature. Pharmacogenomics, 11, 1467-1489.
    • (2010) Pharmacogenomics , vol.11 , pp. 1467-1489
    • Garten, Y.1
  • 14
    • 79959389480 scopus 로고    scopus 로고
    • Molecular event extraction from link grammar parse trees
    • Association for Computational Linguistics
    • Hakenberg, J. et al. (2009) Molecular event extraction from link grammar parse trees. In Proceedings of the BioNLP 2009Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 86-94.
    • (2009) Proceedings of the BioNLP 2009Workshop Companion Volume for Shared Task , pp. 86-94
    • Hakenberg, J.1
  • 15
    • 27544448536 scopus 로고    scopus 로고
    • Implementing the iHOP concept for navigation of biomedical literature
    • Hoffmann, R. and Valencia, A. (2005) Implementing the iHOP concept for navigation of biomedical literature. Bioinformatics, 21 (Suppl. 2), 252-258.
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 2 , pp. 252-258
    • Hoffmann, R.1    Valencia, A.2
  • 16
    • 13444278595 scopus 로고    scopus 로고
    • Using literature-based discovery to identify disease candidate genes
    • Hristovski, D. et al. (2005) Using literature-based discovery to identify disease candidate genes. Inter. J. Med. Infor., 74, 289-298.
    • (2005) Inter. J. Med. Infor. , vol.74 , pp. 289-298
    • Hristovski, D.1
  • 17
    • 12344282809 scopus 로고    scopus 로고
    • Discovering patterns to extract protein-protein interactions from full texts
    • Huang, M. et al. (2004) Discovering patterns to extract protein-protein interactions from full texts. Bioinformatics, 20, 3604-3612.
    • (2004) Bioinformatics , vol.20 , pp. 3604-3612
    • Huang, M.1
  • 18
    • 47349105353 scopus 로고    scopus 로고
    • Anni 2.0: a multipurpose text-mining tool for the life sciences
    • Jelier, R. et al. (2008) Anni 2.0: a multipurpose text-mining tool for the life sciences. Genome Biol., 9, R96.
    • (2008) Genome Biol. , vol.9
    • Jelier, R.1
  • 20
    • 77954195270 scopus 로고    scopus 로고
    • PathText: a text mining integrator for biological pathway visualizations
    • Kemper, B. et al. (2010) PathText: a text mining integrator for biological pathway visualizations. Bioinformatics, 26, i374-i381.
    • (2010) Bioinformatics , vol.26
    • Kemper, B.1
  • 21
    • 85113812952 scopus 로고    scopus 로고
    • Syntactic dependency based heuristics for biological event extraction
    • Association for Computational Linguistics
    • Kilicoglu, H. and Bergler, S. (2009) Syntactic dependency based heuristics for biological event extraction. In Proceedings of the BioNLP 2009Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 119-127.
    • (2009) Proceedings of the BioNLP 2009Workshop Companion Volume for Shared Task , pp. 119-127
    • Kilicoglu, H.1    Bergler, S.2
  • 23
    • 40749087717 scopus 로고    scopus 로고
    • Corpus annotation for mining biomedical events from literature
    • Kim, J.-D.D. et al. (2008) Corpus annotation for mining biomedical events from literature. BMC Bioinformatics, 9, 10.
    • (2008) BMC Bioinformatics , vol.9 , pp. 10
    • Kim, J.-D.1
  • 24
    • 85104042765 scopus 로고    scopus 로고
    • Overview of bionlp'09 shared task on event extraction
    • Association for Computational Linguistics
    • Kim, J.-D. et al. (2009) Overview of bionlp'09 shared task on event extraction. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 1-9.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 1-9
    • Kim, J.-D.1
  • 26
    • 0142192295 scopus 로고    scopus 로고
    • Conditional random fields: Probabilistic models for segmenting and labeling sequence data
    • Morgan Kaufmann Publishers Inc
    • Lafferty, J. et al. (2001) Conditional random fields: Probabilistic models for segmenting and labeling sequence data. In Proceedings of the 18th International Conference on Machine Learning (ICML), Morgan Kaufmann Publishers Inc., pp. 282-289.
    • (2001) Proceedings of the 18th International Conference on Machine Learning (ICML) , pp. 282-289
    • Lafferty, J.1
  • 27
    • 63749097353 scopus 로고    scopus 로고
    • Biomedical discovery acceleration, with applications to craniofacial development
    • Leach, S.M. et al. (2009) Biomedical discovery acceleration, with applications to craniofacial development. PLoS Comput. Biol., 5, e1000215.
    • (2009) PLoS Comput. Biol. , vol.5
    • Leach, S.M.1
  • 28
    • 79959430453 scopus 로고    scopus 로고
    • Biomedical event annotation with crfs and precision grammars
    • Association for Computational Linguistics, Boulder, Colorado
    • MacKinlay, A. et al. (2009) Biomedical event annotation with crfs and precision grammars. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, Boulder, Colorado, pp. 77-85.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 77-85
    • MacKinlay, A.1
  • 29
    • 71549135535 scopus 로고    scopus 로고
    • Protein-protein interaction extraction by leveraging multiple kernels and parsers
    • Miwa, M. et al. (2009) Protein-protein interaction extraction by leveraging multiple kernels and parsers. Inter. J. Med. Infor., 78, e39-e46.
    • (2009) Inter. J. Med. Infor. , vol.78
    • Miwa, M.1
  • 30
    • 77951600909 scopus 로고    scopus 로고
    • Event extraction with complex event classification using rich features
    • Miwa, M. et al. (2010) Event extraction with complex event classification using rich features. J. Bioinformatics Comput. Biol., 8, 131-146.
    • (2010) J. Bioinformatics Comput. Biol. , vol.8 , pp. 131-146
    • Miwa, M.1
  • 32
    • 59549091756 scopus 로고    scopus 로고
    • Evaluating contributions of natural language parsers to proteinprotein interaction extraction
    • Miyao, Y. et al. (2009) Evaluating contributions of natural language parsers to proteinprotein interaction extraction. Bioinformatics, 25, 394-400.
    • (2009) Bioinformatics , vol.25 , pp. 394-400
    • Miyao, Y.1
  • 33
    • 84870565188 scopus 로고    scopus 로고
    • A memory-based learning approach to event extraction in biomedical texts
    • Association for Computational Linguistics
    • Morante, R. et al. (2009) A memory-based learning approach to event extraction in biomedical texts. In Proceedings of the BioNLP 2009Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 59-67.
    • (2009) Proceedings of the BioNLP 2009Workshop Companion Volume for Shared Task , pp. 59-67
    • Morante, R.1
  • 35
    • 79959406042 scopus 로고    scopus 로고
    • Extraction of biomedical events using case-based reasoning
    • Association for Computational Linguistics
    • Neves, M. et al. (2009) Extraction of biomedical events using case-based reasoning. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 68-76.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 68-76
    • Neves, M.1
  • 39
    • 33846664313 scopus 로고    scopus 로고
    • EBIMed-text crunching to gather facts for proteins from MEDLINE
    • Rebholz-Schuhmann, D. et al. (2007) EBIMed-text crunching to gather facts for proteins from MEDLINE. Bioinformatics, 23, e237-e244.
    • (2007) Bioinformatics , vol.23
    • Rebholz-Schuhmann, D.1
  • 40
    • 85017485612 scopus 로고    scopus 로고
    • A markov logic approach to biomolecular event extraction
    • Association for Computational Linguistics
    • Riedel, S. et al. (2009) A markov logic approach to biomolecular event extraction. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 41-49.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 41-49
    • Riedel, S.1
  • 44
    • 61749095126 scopus 로고    scopus 로고
    • Arrowsmith two-node search interface: a tutorial on finding meaningful links between two disparate sets of articles in MEDLINE
    • Smalheiser, N.R. et al. (2009) Arrowsmith two-node search interface: a tutorial on finding meaningful links between two disparate sets of articles in MEDLINE. Comput. Methods Program. Biomed., 94, 190-197.
    • (2009) Comput. Methods Program. Biomed. , vol.94 , pp. 190-197
    • Smalheiser, N.R.1
  • 45
    • 0022786956 scopus 로고
    • Fish oil, raynaud's syndrome, and undiscovered public knowledge
    • Swanson, D.R. (1986) Fish oil, raynaud's syndrome, and undiscovered public knowledge. Pers. Biol. Med., 30, 7-18.
    • (1986) Pers. Biol. Med. , vol.30 , pp. 7-18
    • Swanson, D.R.1
  • 46
    • 0025265976 scopus 로고
    • Medical literature as a potential source of new knowledge
    • Swanson, D.R. (1990) Medical literature as a potential source of new knowledge. Bull. Med. Libr. Assoc., 78, 29-37.
    • (1990) Bull. Med. Libr. Assoc. , vol.78 , pp. 29-37
    • Swanson, D.R.1
  • 47
    • 0031125707 scopus 로고    scopus 로고
    • An interactive system for finding complementary literatures: a stimulus to scientifc discovery
    • Swanson, D.R. and Smalheiser, N.R. (1997) An interactive system for finding complementary literatures: a stimulus to scientifc discovery. Artif. Intell., 91, 183-203.
    • (1997) Artif. Intell. , vol.91 , pp. 183-203
    • Swanson, D.R.1    Smalheiser, N.R.2
  • 48
    • 54949111758 scopus 로고    scopus 로고
    • FACTA: a text search engine for finding associated biomedical concepts
    • Tsuruoka, Y. et al. (2008) FACTA: a text search engine for finding associated biomedical concepts. Bioinformatics, 24, 2559-2560.
    • (2008) Bioinformatics , vol.24 , pp. 2559-2560
    • Tsuruoka, Y.1
  • 49
    • 85037522885 scopus 로고    scopus 로고
    • Analyzing text in search of biomolecular events: a high-precision machine learning framework
    • Association for Computational Linguistics
    • Van Landeghem, S. et al. (2009) Analyzing text in search of biomolecular events: a high-precision machine learning framework. In Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, Association for Computational Linguistics, pp. 128-136.
    • (2009) Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task , pp. 128-136
    • Van Landeghem, S.1
  • 50
    • 79959484585 scopus 로고    scopus 로고
    • Two strong baselines for the bionlp 2009 event extraction task
    • Association for Computational Linguistics
    • Vlachos, A. (2010) Two strong baselines for the bionlp 2009 event extraction task. In Proceedings of the 2010 Workshop on Biomedical Natural Language Processing, Association for Computational Linguistics, pp. 1-9.
    • (2010) Proceedings of the 2010 Workshop on Biomedical Natural Language Processing , pp. 1-9
    • Vlachos, A.1
  • 52
    • 0037545622 scopus 로고    scopus 로고
    • Generating hypotheses by discovering implicit associations in the literature: a case report of a search for new potential therapeutic uses for thalidomide
    • Weeber, M. et al. (2003) Generating hypotheses by discovering implicit associations in the literature: a case report of a search for new potential therapeutic uses for thalidomide. JAMIA, 10, 252-259.
    • (2003) JAMIA , vol.10 , pp. 252-259
    • Weeber, M.1
  • 53
    • 27744586758 scopus 로고    scopus 로고
    • Online tools to support literature-based discovery in the life sciences
    • Weeber, M. et al. (2005) Online tools to support literature-based discovery in the life sciences. Brief. Bioinformatics, 6, 277-286.
    • (2005) Brief. Bioinformatics , vol.6 , pp. 277-286
    • Weeber, M.1
  • 54
    • 1342330525 scopus 로고    scopus 로고
    • Knowledge discovery by automated identification and ranking of implicit relationships
    • Wren, J.D. et al. (2004) Knowledge discovery by automated identification and ranking of implicit relationships. Bioinformatics, 20, 389-398.
    • (2004) Bioinformatics , vol.20 , pp. 389-398
    • Wren, J.D.1
  • 55
    • 67649319239 scopus 로고    scopus 로고
    • A new evaluation methodology for literaturebased discovery systems
    • Yetisgen-Yildiz, M. and Pratt, W. (2009) A new evaluation methodology for literaturebased discovery systems. J. Biomed. Inform., 42, 633-643.
    • (2009) J. Biomed. Inform. , vol.42 , pp. 633-643
    • Yetisgen-Yildiz, M.1    Pratt, W.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.