2025
ShennongAlpha: an AI-driven sharing and collaboration platform for intelligent curation, acquisition, and translation of natural medicinal material knowledge
Yang Z, Yin Y, Kong C, Chi T, Tao W, Zhang Y, Xu T. ShennongAlpha: an AI-driven sharing and collaboration platform for intelligent curation, acquisition, and translation of natural medicinal material knowledge. Cell Discovery 2025, 11: 32. PMID: 40169534, PMCID: PMC11961663, DOI: 10.1038/s41421-025-00776-2.Peer-Reviewed Original ResearchKnowledge curationCollaborative platformApplication of AIMachine translationLeverage AIEfficient curationKnowledge updateKnowledge sharingCritical informationSystematized NomenclaturePlatformSharingCurationNatural medicinal materialsApplicationsCollaborationAcquisitionKnowledgeUpdateStandard description
2024
Using clinical entity recognition for curating an interface terminology to aid fast skimming of EHRs
Kollapally N, Dehkordi M, Perl Y, Geller J, Deek F, Liu H, Keloth V, Elhanan G, Einstein A, Zhou S. Using clinical entity recognition for curating an interface terminology to aid fast skimming of EHRs. 2024, 00: 6427-6434. DOI: 10.1109/bibm62325.2024.10822845.Peer-Reviewed Original ResearchElectronic health recordsEntity recognitionVolume of electronic health recordsEHR interoperabilityClinical entity recognitionClinical terminologyNeural network modelClinical NERTransfer learningSNOMED CT conceptsInterface terminologyNetwork modelSNOMED CTHealth recordsHigher granularityCT conceptsOverworked physiciansHealthcare providersDense volumeRecognitionInteroperabilityCurationGranularityCardiology patientsNERA Guideline for Open-Source Tools to Make Medical Imaging Data Ready for Artificial Intelligence Applications: A Society of Imaging Informatics in Medicine (SIIM) Survey
Vahdati S, Khosravi B, Mahmoudi E, Zhang K, Rouzrokh P, Faghani S, Moassefi M, Tahmasebi A, Andriole K, Chang P, Farahani K, Flores M, Folio L, Houshmand S, Giger M, Gichoya J, Erickson B. A Guideline for Open-Source Tools to Make Medical Imaging Data Ready for Artificial Intelligence Applications: A Society of Imaging Informatics in Medicine (SIIM) Survey. Journal Of Imaging Informatics In Medicine 2024, 37: 2015-2024. PMID: 38558368, PMCID: PMC11522208, DOI: 10.1007/s10278-024-01083-0.Peer-Reviewed Original ResearchConceptsArtificial intelligenceData curationSuccess of machine learningMedical image dataArtificial intelligence applicationsAI model developmentOpen-source toolIntelligence applicationsAI applicationsImaging informaticsMachine learningMedical imagesAI modelsOpen-sourceData readinessData preparationImage dataAnalytics projectsResearch areaArtificialDataCurationDecision-making processCompilation of toolsImages
2022
insectDisease: programmatic access to the Ecological Database of the World's Insect Pathogens
Dallas T, Carlson C, Stephens P, Ryan S, Onstad D. insectDisease: programmatic access to the Ecological Database of the World's Insect Pathogens. Ecography 2022, 2022 DOI: 10.1111/ecog.06152.Peer-Reviewed Original ResearchInsect host-pathogen interactionsInsect pathogensHost-pathogen associationsSpatial distribution of speciesEcological databasesHost-pathogen interactionsDistribution of speciesBiotic interactionsSpecies interactionsCurated databaseInsect hostsProgrammatic accessCuration effortsR packagePathogensInfection outcomesEcologyDistribution dataSpatial distributionSpeciesInoculationCurationHostInteractionThe Need for Medical Artificial Intelligence That Incorporates Prior Images.
Acosta JN, Falcone GJ, Rajpurkar P. The Need for Medical Artificial Intelligence That Incorporates Prior Images. Radiology 2022, 304: 283-288. PMID: 35438563, DOI: 10.1148/radiol.212830.Peer-Reviewed Original ResearchConceptsArtificial intelligenceImage interpretation tasksCurrent AI algorithmsMedical artificial intelligenceBenchmark data setsFuture artificial intelligencePrioritization of tasksData setsAI algorithmsDynamic scenariosPrior imageInterpretation taskRelevant tasksSingle pointTaskIntelligenceSetArchitectureMachineAlgorithmCurationDevicesImagesScenariosInformation
2021
LitSuggest: a web-based system for literature recommendation and curation using machine learning
Allot A, Lee K, Chen Q, Luo L, Lu Z. LitSuggest: a web-based system for literature recommendation and curation using machine learning. Nucleic Acids Research 2021, 49: w352-w358. PMID: 33950204, PMCID: PMC8262723, DOI: 10.1093/nar/gkab326.Peer-Reviewed Original ResearchConceptsNatural language processingWeb-based systemQuery methodSearch systemSearch queriesMachine learningWeb serverCuration servicesAdvanced machineUser projectsLanguage processingClassification resultsTraining corpusSingle interfaceUsersBiomedical researchersCollaborative analysisHigh accuracyLiterature recommendationsPubMed articlesMachineCurationComputational methodsSpecialized knowledgeKeywords
2020
LitCovid: an open database of COVID-19 literature
Chen Q, Allot A, Lu Z. LitCovid: an open database of COVID-19 literature. Nucleic Acids Research 2020, 49: d1534-d1540. PMID: 33166392, PMCID: PMC7778958, DOI: 10.1093/nar/gkaa952.Peer-Reviewed Original ResearchConceptsSerious information overloadCuration workflowData miningInformation overloadCollected articlesInformation needsOpen databaseManual curationNews articlesCOVID-19 literatureLiterature resourcesRapid growthUsersCOVID-19 researchMiningWorkflowAlgorithmCurationDate scientific informationDatabaseInformationGeneral publicResourcesAccessTextBringing Big Data to Bear in Environmental Public Health: Challenges and Recommendations
Comess S, Akbay A, Vasiliou M, Hines RN, Joppa L, Vasiliou V, Kleinstreuer N. Bringing Big Data to Bear in Environmental Public Health: Challenges and Recommendations. Frontiers In Artificial Intelligence 2020, 3: 31. PMID: 33184612, PMCID: PMC7654840, DOI: 10.3389/frai.2020.00031.Peer-Reviewed Original ResearchBig dataArtificial InteligenceSkilled data scientistsComplex data setsData scientistsScientific computingCyber infrastructureMachine learningAI approachesReusable dataFAIR principlesData curationComputational toolsData setsEnvironmental public health researchResearch hubData collectionActionable recommendationsBroader public health communityComputingSharingInteligenceSufficient informationCurationParamount importance
2013
AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification
Dai L, Tian M, Wu J, Xiao J, Wang X, Townsend JP, Zhang Z. AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification. Bioinformatics 2013, 29: 1837-1839. PMID: 23732274, PMCID: PMC3702255, DOI: 10.1093/bioinformatics/btt284.Peer-Reviewed Original Research
2006
A natural language processing (NLP) tool to assist in the curation of the laboratory Mouse Tumor Biology Database.
Xu H, Krupke D, Blake J, Friedman C. A natural language processing (NLP) tool to assist in the curation of the laboratory Mouse Tumor Biology Database. AMIA Annual Symposium Proceedings 2006, 2006: 1150. PMID: 17238769, PMCID: PMC1839428.Peer-Reviewed Original ResearchConceptsMouse Genome Informatics groupNatural language processing toolsModel organism databaseMouse Tumor Biology DatabaseLanguage processing toolsBiology databasesOrganism databasesGenomic informationBiological communitiesProcessing toolsSpecific organismsInformatics GroupOrganismsKey informationDatabaseInformationSubstantial effortCurationTool
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