메뉴 건너뛰기




Volumn 18, Issue , 2017, Pages

Dependency-based long short term memory network for drug-drug interaction extraction

Author keywords

Data imbalance; Dependency tree; Long short term memory; Relation extraction

Indexed keywords

BRAIN; DEEP NEURAL NETWORKS; EXTRACTION; LONG SHORT-TERM MEMORY; NETWORK LAYERS; TREES (MATHEMATICS);

EID: 85039751643     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/s12859-017-1962-8     Document Type: Article
Times cited : (57)

References (43)
  • 2
    • 0032522873 scopus 로고    scopus 로고
    • Incidence of adverse drug reactions in hospitalized patients: a meta-analysis of prospective studies[J]
    • Lazarou J, Pomeranz BH, Corey PN. Incidence of adverse drug reactions in hospitalized patients: a meta-analysis of prospective studies[J]. JAMA. 1998;279(15):1200-5.
    • (1998) JAMA , vol.279 , Issue.15 , pp. 1200-1205
    • Lazarou, J.1    Pomeranz, B.H.2    Corey, P.N.3
  • 3
    • 84907962535 scopus 로고    scopus 로고
    • Why we need an efficient and careful pharmacovigilance?
    • Businaro R. Why we need an efficient and careful pharmacovigilance? Aust J Pharm. 2013;1(4):1000e110.
    • (2013) Aust J Pharm , vol.1 , Issue.4 , pp. 1000-1110
    • Businaro, R.1
  • 4
    • 78651287426 scopus 로고    scopus 로고
    • DrugBank 3.0: a comprehensive resource for 'Omics' research on drugs[J]
    • Knox C, Law V, Jewison T, et al. DrugBank 3.0: a comprehensive resource for 'Omics' research on drugs[J]. Nucleic Acids Res. 2011;39(Database issue):D1035.
    • (2011) Nucleic Acids Res , vol.39 , Issue.DATABASE ISSUE , pp. D1035
    • Knox, C.1    Law, V.2    Jewison, T.3
  • 5
    • 70350664920 scopus 로고    scopus 로고
    • Stockley's drug interactions[M]
    • Pharmaceutical Press
    • Stott P. Stockley's drug interactions[M]: Pharmaceutical Press; 2010.
    • (2010)
    • Stott, P.1
  • 7
    • 79953109654 scopus 로고    scopus 로고
    • A linguistic rule-based approach to extract drug-drug interactions from pharmacological documents[J]
    • Segura-Bedmar I, Martínez P, Pablo-Sánchez CD. A linguistic rule-based approach to extract drug-drug interactions from pharmacological documents[J]. BMC Bioinformatics. 2011;12(2):S1.
    • (2011) BMC Bioinformatics , vol.12 , Issue.2 , pp. S1
    • Segura-Bedmar, I.1    Martínez, P.2    Pablo-Sánchez, C.D.3
  • 8
    • 80051544749 scopus 로고    scopus 로고
    • Non-negative patch alignment framework[J]
    • Guan N, Tao D, Luo Z, et al. Non-negative patch alignment framework[J]. IEEE Trans Neural Netw. 2011;22(8):1218-30.
    • (2011) IEEE Trans Neural Netw , vol.22 , Issue.8 , pp. 1218-1230
    • Guan, N.1    Tao, D.2    Luo, Z.3
  • 9
    • 84865442402 scopus 로고    scopus 로고
    • Online nonnegative matrix factorization with robust stochastic approximation[J]
    • Guan N, Tao D, Luo Z, et al. Online nonnegative matrix factorization with robust stochastic approximation[J]. IEEE Transactions on Neural Networks and Learning Systems. 2012;23(7):1087-99.
    • (2012) IEEE Transactions on Neural Networks and Learning Systems , vol.23 , Issue.7 , pp. 1087-1099
    • Guan, N.1    Tao, D.2    Luo, Z.3
  • 10
    • 84922015329 scopus 로고    scopus 로고
    • Multiple kernel extreme learning machine[J]
    • PA.
    • Liu X, Wang L, Huang G B, et al. Multiple kernel extreme learning machine[J]. Neurocomputing, 2015, 149(PA):253-264.
    • (2015) Neurocomputing , vol.149 , pp. 253-264
    • Liu, X.1    Wang, L.2    Huang, G.B.3
  • 11
    • 85039716836 scopus 로고    scopus 로고
    • Application of information extraction techniques to pharmacological domain: extracting drug-drug interactions[J]
    • Bedmar IS. Application of information extraction techniques to pharmacological domain: extracting drug-drug interactions[J]. Baillières Clinical Obstetrics & Gynaecology. 2010;4(3):609-25.
    • (2010) Baillières Clinical Obstetrics & Gynaecology , vol.4 , Issue.3 , pp. 609-625
    • Bedmar, I.S.1
  • 12
    • 84883452138 scopus 로고    scopus 로고
    • Drug-drug interaction detection: a new approach based on maximal frequent sequences[J]
    • Blasco SG, Danger R, Rosso P. Drug-drug interaction detection: a new approach based on maximal frequent sequences[J]. Procesamiento Del Lenguaje Natural. 2010:263-6.
    • (2010) Procesamiento Del Lenguaje Natural. , pp. 263-266
    • Blasco, S.G.1    Danger, R.2    Rosso, P.3
  • 14
    • 84865089399 scopus 로고    scopus 로고
    • The 1st DDIExtraction-2011 challenge task: extraction of drug-drug interactions from biomedical texts[J]
    • Segura-Bedmar I, Martinez P, Sánchez-Cisneros D. The 1st DDIExtraction-2011 challenge task: extraction of drug-drug interactions from biomedical texts[J]. Bedmar. 2011;11(12):1-9.
    • (2011) Bedmar , vol.11 , Issue.12 , pp. 1-9
    • Segura-Bedmar, I.1    Martinez, P.2    Sánchez-Cisneros, D.3
  • 15
    • 84889606550 scopus 로고    scopus 로고
    • Semeval-2013 task 9: extraction of drug-drug interactions from biomedical texts (ddiextraction 2013)[J]
    • Segura-Bedmar I. Semeval-2013 task 9: extraction of drug-drug interactions from biomedical texts (ddiextraction 2013)[J]. 2013.
    • (2013)
    • Segura-Bedmar, I.1
  • 16
    • 85049789260 scopus 로고    scopus 로고
    • SCAI: extracting drug-drug interactions using a rich feature vector[J]
    • Bobic T, Fluck J, Hofmannapitius M. SCAI: extracting drug-drug interactions using a rich feature vector[J]. Relation Extraction. 2013;
    • (2013) Relation Extraction.
    • Bobic, T.1    Fluck, J.2    Hofmannapitius, M.3
  • 17
    • 84983602277 scopus 로고    scopus 로고
    • UColorado SOM: extraction of drug-drug interactions from biomedical text using knowledge-rich and knowledge-poor features[J]
    • Hailu ND, Hunter LE, Cohen KB. UColorado SOM: extraction of drug-drug interactions from biomedical text using knowledge-rich and knowledge-poor features[J]. Proceedings of SemEval. 2013:684-8.
    • (2013) Proceedings of SemEval. , pp. 684-688
    • Hailu, N.D.1    Hunter, L.E.2    Cohen, K.B.3
  • 18
    • 85039705433 scopus 로고    scopus 로고
    • WBI-DDI: drug-drug interaction extraction using majority voting[C]//Second Joint Conference on Lexical and Computational Semantics (*SEM)
    • Thomas P, Neves M, Rocktäschel T, et al. WBI-DDI: drug-drug interaction extraction using majority voting[C]//Second Joint Conference on Lexical and Computational Semantics (*SEM). 2013, 2: 628-635.
    • (2013) , vol.2 , pp. 628-635
    • Thomas, P.1    Neves, M.2    Rocktäschel, T.3
  • 19
    • 85015787416 scopus 로고    scopus 로고
    • Joint Entity and Relation Extraction Based on A Hybrid Neural Network[J]
    • Zheng S, Hao Y, Lu D, et al. Joint Entity and Relation Extraction Based on A Hybrid Neural Network[J]. Neurocomputing, 2017, 257(000):1-8.
    • (2017) Neurocomputing , vol.257 , pp. 1-8
    • Zheng, S.1    Hao, Y.2    Lu, D.3
  • 22
    • 85008626797 scopus 로고    scopus 로고
    • Drug drug interaction extraction from biomedical literature using syntax convolutional neural network[J]
    • Zhao Z, Yang Z, Luo L, et al. Drug drug interaction extraction from biomedical literature using syntax convolutional neural network[J]. Bioinformatics. 2016;32(22):3444-53.
    • (2016) Bioinformatics , vol.32 , Issue.22 , pp. 3444-3453
    • Zhao, Z.1    Yang, Z.2    Luo, L.3
  • 23
    • 84959893810 scopus 로고    scopus 로고
    • Semantic relation classification via convolutional neural networks with simple negative sampling[J]
    • arXiv preprint
    • Xu K, Feng Y, Huang S, et al. Semantic relation classification via convolutional neural networks with simple negative sampling[J]. arXiv preprint arXiv:1506.07650, 2015.
    • (2015)
    • Xu, K.1    Feng, Y.2    Huang, S.3
  • 24
    • 84959862537 scopus 로고    scopus 로고
    • Relation classification via Convolutional deep neural network[C]
    • Zeng D, Liu K, Lai S, et al. Relation classification via Convolutional deep neural network[C]//COLING; 2014. p. 2335-44.
    • (2014) COLING , pp. 2335-2344
    • Zeng, D.1    Liu, K.2    Lai, S.3
  • 25
    • 84994170677 scopus 로고    scopus 로고
    • Relation classification via recurrent neural network[J]
    • arXiv preprint
    • Zhang D, Wang D. Relation classification via recurrent neural network[J]. arXiv preprint arXiv:1508.01006, 2015.
    • (2015)
    • Zhang, D.1    Wang, D.2
  • 26
    • 84959865227 scopus 로고    scopus 로고
    • Classifying relations via long short term memory networks along shortest dependency paths[C]
    • Xu Y, Mou L, Li G, et al. Classifying relations via long short term memory networks along shortest dependency paths[C]//EMNLP; 2015. p. 1785-94.
    • (2015) EMNLP , pp. 1785-1794
    • Xu, Y.1    Mou, L.2    Li, G.3
  • 27
    • 84967321318 scopus 로고    scopus 로고
    • Bidirectional long short-term memory networks for relation classification[C]
    • Zhang S, Zheng D, Hu X, et al. Bidirectional long short-term memory networks for relation classification[C]//PACLIC. 2015.
    • (2015) PACLIC
    • Zhang, S.1    Zheng, D.2    Hu, X.3
  • 28
    • 26444501580 scopus 로고    scopus 로고
    • Dependency-based evaluation of MINIPAR[J]
    • Lin D. Dependency-based evaluation of MINIPAR[J]. Treebanks. 2003:317-29.
    • (2003) Treebanks. , pp. 317-329
    • Lin, D.1
  • 29
    • 85037338954 scopus 로고    scopus 로고
    • Generating typed dependency parses from phrase structure parses[J]
    • Marneffe MCD, Maccartney B, Manning CD. Generating typed dependency parses from phrase structure parses[J]. Lrec. 2006:449-54.
    • (2006) Lrec. , pp. 449-454
    • Marneffe, M.C.D.1    Maccartney, B.2    Manning, C.D.3
  • 30
    • 85083951332 scopus 로고    scopus 로고
    • Efficient estimation of word representations in vector space[J]
    • arXiv preprint
    • Mikolov T, Chen K, Corrado G, et al. Efficient estimation of word representations in vector space[J]. arXiv preprint arXiv:1301.3781, 2013.
    • (2013)
    • Mikolov, T.1    Chen, K.2    Corrado, G.3
  • 31
    • 84941620184 scopus 로고    scopus 로고
    • Adam: a method for stochastic optimization[J]
    • arXiv preprint arXiv
    • Kingma D, Ba J. Adam: a method for stochastic optimization[J]. arXiv preprint arXiv; 2014. p. 1412.6980.
    • (2014) , pp. 1412.6980
    • Kingma, D.1    Ba, J.2
  • 33
    • 84930689846 scopus 로고    scopus 로고
    • Extracting drug-drug interactions from literature using a rich feature-based linear kernel approach[J]
    • Sun K, Liu H, Yeganova L, et al. Extracting drug-drug interactions from literature using a rich feature-based linear kernel approach[J]. Journal of Biomedical Informatics, 2015, 55(C):23-30.
    • (2015) Journal of Biomedical Informatics , vol.55 , Issue.C , pp. 23-30
    • Sun, K.1    Liu, H.2    Yeganova, L.3
  • 35
    • 84971577321 scopus 로고    scopus 로고
    • TensorFlow: large-scale machine learning on heterogeneous distributed systems[J]
    • Abadi M, Agarwal A, Barham P, et al. TensorFlow: large-scale machine learning on heterogeneous distributed systems[J]. 2016.
    • (2016)
    • Abadi, M.1    Agarwal, A.2    Barham, P.3
  • 36
    • 84894543184 scopus 로고    scopus 로고
    • Efficient estimation of word representations in vector space[J]
    • arXiv preprint arXiv
    • Mikolov T, Chen K, Corrado G, et al. Efficient estimation of word representations in vector space[J]. arXiv preprint arXiv; 2013. p. 1301.3781.
    • (2013) , pp. 1301.3781
    • Mikolov, T.1    Chen, K.2    Corrado, G.3
  • 37
    • 79954533893 scopus 로고    scopus 로고
    • PubMed and beyond: a survey of web tools for searching biomedical literature[J]
    • (2011-01-01), 2011, 2011(1):baq036
    • Lu Z. PubMed and beyond: a survey of web tools for searching biomedical literature[J]. Database, 2011, (2011-01-01), 2011, 2011(1):baq036.
    • (2011) Database
    • Lu, Z.1
  • 38
    • 84943756210 scopus 로고    scopus 로고
    • Convolutional neural networks for sentence classification[J]
    • arXiv preprint
    • Kim Y. Convolutional neural networks for sentence classification[J]. arXiv preprint arXiv:1408.5882, 2014.
    • (2014)
    • Kim, Y.1
  • 39
    • 85031322240 scopus 로고    scopus 로고
    • FBK-irst: A multi-phase kernel based approach for drug-drug interaction detection and classification that exploits linguistic information[J]
    • Chowdhury M F M, Lavelli A. FBK-irst: A multi-phase kernel based approach for drug-drug interaction detection and classification that exploits linguistic information[J]. Atlanta, Georgia, USA, 2013, 351: 53.
    • (2013) Atlanta, Georgia, USA , vol.351 , pp. 53
    • Chowdhury, M.F.M.1    Lavelli, A.2
  • 40
    • 85040578445 scopus 로고    scopus 로고
    • NIL UCM: Extracting drug-drug interactions from text through combination of sequence and tree kernels[C]
    • Atlanta, Georgia, USA
    • Bokharaeian B, Díaz A. NIL UCM: Extracting drug-drug interactions from text through combination of sequence and tree kernels[C]//second joint conference on lexical and computational semantics. Atlanta, Georgia, USA. 2013: 644-650.
    • (2013) second joint conference on lexical and computational semantics , pp. 644-650
    • Bokharaeian, B.1    Díaz, A.2
  • 42
    • 85030870160 scopus 로고    scopus 로고
    • Drug-drug interaction extraction from biomedical text using long short term memory network[J]
    • arXiv preprint arXiv
    • Sahu SK, Anand A. Drug-drug interaction extraction from biomedical text using long short term memory network[J]. arXiv preprint arXiv; 2017. p. 1701.08303.
    • (2017) , pp. 1701.08303
    • Sahu, S.K.1    Anand, A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.