2019
Recognizing software names in biomedical literature using machine learning
Wei Q, Zhang Y, Amith M, Lin R, Lapeyrolerie J, Tao C, Xu H. Recognizing software names in biomedical literature using machine learning. Health Informatics Journal 2019, 26: 21-33. PMID: 31566474, PMCID: PMC7334865, DOI: 10.1177/1460458219869490.Peer-Reviewed Original ResearchMeSH KeywordsBiomedical TechnologyKnowledge DiscoveryMachine LearningNatural Language ProcessingPublicationsSoftwareConceptsSoftware namesF-measureNatural language processing methodsBiomedical literatureWord representation featuresLanguage processing methodsEntity recognition systemSoftware catalogSoftware repositoriesFeature engineeringBiomedical softwareRecognition systemSoftware toolsBiomedical domainRepresentation featuresMEDLINE abstractsWord embeddingsKnowledge featuresManual curationSoftwareMachineProcessing methodsBest systemRepositorySystem
2016
Leveraging syntactic and semantic graph kernels to extract pharmacokinetic drug drug interactions from biomedical literature
Zhang Y, Wu H, Xu J, Wang J, Soysal E, Li L, Xu H. Leveraging syntactic and semantic graph kernels to extract pharmacokinetic drug drug interactions from biomedical literature. BMC Systems Biology 2016, 10: 67. PMID: 27585838, PMCID: PMC5009562, DOI: 10.1186/s12918-016-0311-2.Peer-Reviewed Original ResearchConceptsPaths graph kernelGraph kernelsSemantic classesSemantic informationBiomedical literatureShallow semantic representationsText mining techniquesBest F-scoreAutomatic DDI extractionProblem of sparsenessDependency structureSemantic graphDDI detectionKnowledge basesDDI corpusF-scoreDDI extractionSemantic representationNovel approachExperimental resultsKernelHigh precisionInformationSparsenessGraph
2015
Citation Sentiment Analysis in Clinical Trial Papers.
Xu J, Zhang Y, Wu Y, Wang J, Dong X, Xu H. Citation Sentiment Analysis in Clinical Trial Papers. AMIA Annual Symposium Proceedings 2015, 2015: 1334-41. PMID: 26958274, PMCID: PMC4765697.Peer-Reviewed Original Research
2010
Mining Biomedical Literature for Terms related to Epidemiologic Exposures.
Xu H, Lu Y, Jiang M, Liu M, Denny J, Dai Q, Peterson N. Mining Biomedical Literature for Terms related to Epidemiologic Exposures. AMIA Annual Symposium Proceedings 2010, 2010: 897-901. PMID: 21347108, PMCID: PMC3041399.Peer-Reviewed Original Research