Extraction and classification of drug-drug interaction from biomedical text using a twostage classifier

[1]  César de Pablo-Sánchez,et al.  Using a shallow linguistic kernel for drug-drug interaction extraction , 2011, J. Biomed. Informatics.

[2]  Dan Klein,et al.  Feature-Rich Part-of-Speech Tagging with a Cyclic Dependency Network , 2003, NAACL.

[3]  D. Bates,et al.  Incidence and preventability of adverse drug events among older persons in the ambulatory setting. , 2003, JAMA.

[4]  Tomasz Z Jodlowski,et al.  How Up-to-Date is Your Drug-Drug Interaction Database? , 2011, The Annals of pharmacotherapy.

[5]  J. Hallas,et al.  Polypharmacy and the risk of drug-drug interactions among Danish elderly. A prescription database study. , 1998, Danish medical bulletin.

[6]  Chris D. Paice,et al.  Another stemmer , 1990, SIGF.

[7]  Juliane Fluck,et al.  SCAI: Extracting drug-drug interactions using a rich feature vector , 2013, SemEval@NAACL-HLT.

[8]  Michael Collins,et al.  Convolution Kernels for Natural Language , 2001, NIPS.

[9]  Hiroshi Yasuda,et al.  A spectrum tree kernel (論文特集:データマイニングと統計数理) , 2007 .

[10]  Jari Björne,et al.  UTurku: Drug Named Entity Recognition and Drug-Drug Interaction Extraction Using SVM Classification and Domain Knowledge , 2013, *SEMEVAL.

[11]  Paloma Martínez,et al.  A linguistic rule-based approach to extract drug-drug interactions from pharmacological documents , 2011, BMC Bioinformatics.

[12]  Ulf Leser,et al.  Relation Extraction for Drug-Drug Interactions using Ensemble Learning , 2011 .

[13]  János Csirik,et al.  The BioScope corpus: biomedical texts annotated for uncertainty, negation and their scopes , 2008, BMC Bioinformatics.

[14]  P. Barach,et al.  Clarifying Adverse Drug Events: A Clinician's Guide to Terminology, Documentation, and Reporting , 2004, Annals of Internal Medicine.

[15]  Christopher G. Chute,et al.  Integrating Pharmacokinetics Knowledge into a Drug Ontology As an Extension to Support Pharmacogenomics , 2003, AMIA.

[16]  Alexander J. Smola,et al.  Fast Kernels for String and Tree Matching , 2002, NIPS.

[17]  Alberto Díaz,et al.  NIL_UCM: Extracting Drug-Drug interactions from text through combination of sequence and tree kernels , 2013, SemEval@NAACL-HLT.

[18]  Chitta Baral,et al.  Discovering drug–drug interactions: a text-mining and reasoning approach based on properties of drug metabolism , 2010, Bioinform..

[19]  Chih-Jen Lin,et al.  LIBSVM: A library for support vector machines , 2011, TIST.

[20]  Claudio Giuliano,et al.  Exploiting Shallow Linguistic Information for Relation Extraction from Biomedical Literature , 2006, EACL.

[21]  Nitesh V. Chawla,et al.  SMOTE: Synthetic Minority Over-sampling Technique , 2002, J. Artif. Intell. Res..

[23]  Jari Björne,et al.  Comparative analysis of five protein-protein interaction corpora , 2008, BMC Bioinformatics.

[24]  Thorsten Joachims,et al.  Making large-scale support vector machine learning practical , 1999 .

[25]  M. Pirmohamed,et al.  Adverse drug reactions as cause of admission to hospital: prospective analysis of 18 820 patients , 2004, BMJ : British Medical Journal.

[26]  Hinrich Schütze,et al.  Introduction to information retrieval , 2008 .

[27]  Mariana L. Neves,et al.  WBI-DDI: Drug-Drug Interaction Extraction using Majority Voting , 2013, *SEMEVAL.

[28]  L. Kohn,et al.  To Err Is Human : Building a Safer Health System , 2007 .

[29]  William B Runciman,et al.  Adverse drug events and medication errors in Australia. , 2003, International journal for quality in health care : journal of the International Society for Quality in Health Care.

[30]  Lang Li,et al.  Extraction of drug-drug interactions using all paths graph kernel , 2011 .

[31]  Zhiyong Lu,et al.  OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression , 2008, BMC Bioinformatics.

[32]  Md. Faisal Mahbub Chowdhury,et al.  Drug-drug Interaction Extraction Using Composite Kernels , 2011 .

[33]  Linda Gavendo,et al.  The incidence of adverse drug events in two large academic long-term care facilities. , 2005, The American journal of medicine.

[34]  S. Trent Rosenbloom,et al.  Categorical Information in Pharmaceutical Terminologies , 2006, AMIA.

[35]  Dan Klein,et al.  Accurate Unlexicalized Parsing , 2003, ACL.

[36]  Anthony J Avery,et al.  Incidence and Possible Causes of Prescribing Potentially Hazardous/Contraindicated Drug Combinations in General Practice , 2005, Drug safety.

[37]  Xiaohua Hu,et al.  Dragon Toolkit: Incorporating Auto-Learned Semantic Knowledge into Large-Scale Text Retrieval and Mining , 2007, 19th IEEE International Conference on Tools with Artificial Intelligence(ICTAI 2007).

[38]  Nicholas Christenfeld,et al.  Increase in US medication-error deaths between 1983 and 1993 , 1998, The Lancet.

[39]  Majid Rastegar-Mojarad,et al.  UWM-TRIADS: Classifying Drug-Drug Interactions with Two-Stage SVM and Post-Processing , 2013, SemEval@NAACL-HLT.

[40]  Isabel Segura-Bedmar,et al.  Drug name recognition and classification in biomedical texts. A case study outlining approaches underpinning automated systems. , 2008, Drug discovery today.

[41]  Christiane Fellbaum,et al.  Book Reviews: WordNet: An Electronic Lexical Database , 1999, CL.

[42]  Ulf Leser,et al.  ChemSpot: a hybrid system for chemical named entity recognition , 2012, Bioinform..

[43]  Ian H. Witten,et al.  The WEKA data mining software: an update , 2009, SKDD.

[44]  Robert J Weber,et al.  Contradictions in Contraindications for Drug-Drug Interactions , 2011, The Annals of pharmacotherapy.

[45]  Sunghwan Sohn,et al.  Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications , 2010, J. Am. Medical Informatics Assoc..

[46]  Alberto Lavelli,et al.  FBK-irst : A Multi-Phase Kernel Based Approach for Drug-Drug Interaction Detection and Classification that Exploits Linguistic Information , 2013, *SEMEVAL.

[47]  Eugene Charniak,et al.  Coarse-to-Fine n-Best Parsing and MaxEnt Discriminative Reranking , 2005, ACL.

[48]  K. Bretonnel Cohen,et al.  UColorado_SOM: Extraction of Drug-Drug Interactions from Biomedical Text using Knowledge-rich and Knowledge-poor Features , 2013, SemEval@NAACL-HLT.

[49]  Ugo Moretti,et al.  Epidemiology and characteristics of adverse drug reactions caused by drug–drug interactions , 2012, Expert opinion on drug safety.

[50]  Isabel Segura-Bedmar,et al.  The 1st DDIExtraction-2011 challenge task: Extraction of Drug-Drug Interactions from biomedical texts , 2011 .

[51]  Martijn J. Schuemie,et al.  A dictionary to identify small molecules and drugs in free text , 2009, Bioinform..

[52]  A. Vitry,et al.  Comparative assessment of four drug interaction compendia. , 2007, British journal of clinical pharmacology.

[53]  Richard Boyce,et al.  Using Natural Language Processing to Extract Drug-Drug Interaction Information from Package Inserts , 2012 .

[54]  Alan R. Aronson,et al.  Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program , 2001, AMIA.

[55]  Martin F. Porter,et al.  An algorithm for suffix stripping , 1997, Program.

[56]  Eugene Charniak,et al.  Any Domain Parsing: Automatic Domain Adaptation for Natural Language Parsing , 2010 .

[57]  Anne-Lyse Minard,et al.  Feature selection for drug-drug interaction detection using machine-learning based approaches , 2011 .

[58]  Lisa E Hines,et al.  Recommendations for Generating, Evaluating, and Implementing Drug‐Drug Interaction Evidence , 2012, Pharmacotherapy.

[59]  Ulf Leser,et al.  A Comprehensive Benchmark of Kernel Methods to Extract Protein–Protein Interactions from Literature , 2010, PLoS Comput. Biol..

[60]  Lisa E Hines,et al.  Potentially harmful drug-drug interactions in the elderly: a review. , 2011, The American journal of geriatric pharmacotherapy.

[61]  David S. Wishart,et al.  DrugBank 3.0: a comprehensive resource for ‘Omics’ research on drugs , 2010, Nucleic Acids Res..

[62]  Paloma Martínez,et al.  SemEval-2013 Task 9 : Extraction of Drug-Drug Interactions from Biomedical Texts (DDIExtraction 2013) , 2013, *SEMEVAL.

[63]  Brian Harrington,et al.  Automatic detection of drug interaction mismatches in package inserts , 2013, 2013 International Conference on Advances in Computing, Communications and Informatics (ICACCI).