2020
Automatic Sleep Scoring Toolbox and Its Application in Sleep Apnea
Yan R, Li F, Wang X, Ristaniemi T, Cong F. Automatic Sleep Scoring Toolbox and Its Application in Sleep Apnea. Communications In Computer And Information Science 2020, 1247: 256-275. DOI: 10.1007/978-3-030-52686-3_11.Peer-Reviewed Original ResearchFeature extractionExpedite sleep researchPhase of feature extractionAutomatic sleep scoringTime-frequency charactersUser-friendly interfaceMulti-signal processingSignal preprocessingRandom forest algorithmTarget classEntropy characterSleep-disordered breathingForest algorithmTime-frequencySignal typesSleep apneaAutomatic processingSleep scoresDegree of sleep-disordered breathingAccuracyFrequency characterToolboxStatistical characterClassifierSleep research
2019
Developing Customizable Cancer Information Extraction Modules for Pathology Reports Using CLAMP
Soysal E, Warner J, Wang J, Jiang M, Harvey K, Jain S, Dong X, Song H, Siddhanamatha H, Wang L, Dai Q, Chen Q, Du X, Tao C, Yang P, Denny J, Liu H, Xu H. Developing Customizable Cancer Information Extraction Modules for Pathology Reports Using CLAMP. Studies In Health Technology And Informatics 2019, 264: 1041-1045. PMID: 31438083, PMCID: PMC7359882, DOI: 10.3233/shti190383.Peer-Reviewed Original ResearchConceptsElectronic health recordsNLP solutionNatural language processing technologyInformation extraction moduleLanguage processing technologyInformation extraction tasksUser-friendly interfaceBest F-measureInformation extractionExtraction moduleExtraction taskCustomizable modulesNLP systemsF-measureAcademic useHealth recordsComparable performanceProcessing technologyVanderbilt University Medical CenterModuleDiverse typesInformationNLPSubstantial effortSystemLitSense: making sense of biomedical literature at sentence level
Allot A, Chen Q, Kim S, Alvarez R, Comeau D, Wilbur W, Lu Z. LitSense: making sense of biomedical literature at sentence level. Nucleic Acids Research 2019, 47: w594-w599. PMID: 31020319, PMCID: PMC6602490, DOI: 10.1093/nar/gkz289.Peer-Reviewed Original ResearchConceptsFirst web-based systemFilter search resultsNeural embedding approachBiomedical literatureUser-friendly interfaceWeb-based systemTerm-weighting approachUser queriesQuery formulationUnified accessKeyword matchesBiomedical entitiesSentence retrievalResults visualizationSearch resultsEmbedding approachCurrent toolsQueriesRetrievalSentence levelRare termsRelevant resultsSignificant effortsPrevious knowledgePubTator
2009
Willows: a memory efficient tree and forest construction package
Zhang H, Wang M, Chen X. Willows: a memory efficient tree and forest construction package. BMC Bioinformatics 2009, 10: 130. PMID: 19416535, PMCID: PMC2683818, DOI: 10.1186/1471-2105-10-130.Peer-Reviewed Original ResearchConceptsMassive genotype dataUser-friendly interfaceExcessive memory demandsHigh-dimensional dataNew software packageGenomic dataFriendly interfaceUse of memoryDimensional dataMassive amountsRandom forestPartitioning techniquesHigh-throughput genomic dataPowerful bioinformatics toolsEfficient treeComputer memorySoftware packageMassive sizeForest methodMemory demandsConstruction packagesSingle nucleotide polymorphismsBioinformatics toolsSNP dataGenotyping platforms
2007
Tilescope: online analysis pipeline for high-density tiling microarray data
Zhang ZD, Rozowsky J, Lam H, Du J, Snyder M, Gerstein M. Tilescope: online analysis pipeline for high-density tiling microarray data. Genome Biology 2007, 8: r81. PMID: 17501994, PMCID: PMC1929149, DOI: 10.1186/gb-2007-8-5-r81.Peer-Reviewed Original Research
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