Ontobee

Time 2021-11-14 11:14:25

Web Name: Ontobee

WebSite: http://www.ontobee.org

ID:232145

Keywords:

Ontobee,

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HomeIntroStatisticsSPARQLOntobeepAnnotatorTutorialFAQsReferencesLinksContactAcknowledgeNewsWelcome to Ontobee!

Ontobee: A linked data server designed for ontologies. Ontobee is aimed to facilitate ontology data sharing, visualization, query, integration, and analysis. Ontobee dynamically dereferences and presents individual ontology term URIs to (i) HTML web pages for user-friendly web browsing and navigation, and to (ii) RDF source code for Semantic Web applications. Ontobee is the default linked data server for most OBO Foundry library ontologies. Ontobee has also been used for many non-OBO ontologies.

Currently Ontobee has been applied for the following ontologies:

No.Ontology PrefixOntology Full NameOBO List of Terms

F: Foundry
L: Library
N: Not Specified/No

1AEOAnatomical Entity OntologyL2AGROAgronomy OntologyL3AISMOntology for the Anatomy of the Insect SkeletoMuscular system (AISM)L4AMPHXThe Amphioxus Development and Anatomy OntologyL5APOAscomycete phenotype ontologyL6APOLLO_SVApollo Structured VocabularyL7AROAntibiotic Resistance OntologyL8BCGOBeta Cell Genomics OntologyL9BCOBiological Collections OntologyL10BFOBasic Formal OntologyF11BFO11Basic Formal Ontology (BFO) 1.1L12BSPOBiological Spatial OntologyL13BTOBRENDA tissue / enzyme sourceL14CAROCommon Anatomy Reference OntologyL15CDAOComparative Data Analysis OntologyL16CDNOCompositional Dietary Nutrition OntologyL17CEPHCephalopod OntologyL18CHEBIChemical Entities of Biological InterestF19CHEMINFChemical Information OntologyL20CHIROCHEBI Integrated Role OntologyL21CHMOChemical Methods OntologyL22CIDOCoronavirus Infectious Disease OntologyL23CIOConfidence Information OntologyL24CLCell OntologyL25CLAOCollembola Anatomy OntologyL26CLOCell Line OntologyL27CLO-hPSCregCell Line Ontology - Human Pluripotent Stem Cell RegistryN28CLO-NICRCell Line Ontology - Chinese National Infrastructure of Cell Line ResourceN29CLYHClytia hemisphaerica Development and Anatomy OntologyL30CMOClinical measurement ontologyL31COBCore Ontology for Biology and BiomedicineL32CROContributor Role OntologyL33CTCAE-OAEviewOAE CTCAE viewN34CTENOCtenophore OntologyL35CTOCTO: Core Ontology of Clinical TrialsL36CVDOCardiovascular Disease OntologyL37d-actsOntology of Document ActsN38DDANATDictyostelium discoideum anatomyL39DDPHENODictyostelium discoideum phenotype ontologyL40DIDEODrug-drug Interaction and Drug-drug Interaction Evidence OntologyL41DOIDHuman Disease OntologyF42DPODrosophila Phenotype OntologyL43DRONThe Drug OntologyL44DUOData Use OntologyL45ECAOThe Echinoderm Anatomy and Development OntologyL46ECOEvidence ontologyL47ECOCOREAn ontology of core ecological entitiesL48ECTOEnvironmental conditions, treatments and exposures ontologyL49EDAMEMBRACE Data and MethodsN50EFOExperimental Factor OntologyN51EHDAA2Human developmental anatomy, abstractL52EMAPAMouse Developmental Anatomy OntologyL53ENVOEnvironment OntologyL54EPOEpidemiology OntologyL55EROeagle-i resource ontologyL56EUPATHVEuPathDB ontologyL57ExOExposure ontologyL58FAOFungal gross anatomyL59FBBIBiological Imaging Methods OntologyL60FBBTDrosophila gross anatomyL61FBCVFlyBase Controlled VocabularyL62FBdvDrosophila developmentL63FIDEOFood Interactions with Drugs Evidence OntologyL64FIXPhysico-chemical methods and propertiesL65FLOPOFlora Phenotype OntologyL66FMAFoundational Model of Anatomy Ontology (subset)L67FOBIFOBIL68FOODONFOODONL69FOVTFuTRES Ontology of Vertebrate TraitsL70FYPOFission Yeast Phenotype OntologyL71GAZGazetteerL72GECKOGenomics Cohorts Knowledge OntologyL73GENEPIOGenomic Epidemiology OntologyL74GENOGenotype OntologyL75GEOGeographical Entity OntologyL76GNOGlycan Naming and Subsumption Ontology (GNOme)L77GOGene OntologyF78GSSOGender, Sex, and Sexual Orientation (GSSO) ontologyL79HANCESTROHuman Ancestry OntologyL80HAOHymenoptera Anatomy OntologyL81HOMHomology OntologyL82HPHuman Phenotype OntologyL83HSAPDVHuman Developmental StagesL84HSOHealth Surveillance OntologyL85HTNHypertension OntologyL86IAOInformation Artifact OntologyL87IAO-Onto-MetaIAO Ontology MetadataN88ICDOInternational Classification of Disease OntologyN89ICEOIntegrative and Conjugative Element OntologyL90ICOInformed Consent OntologyL91IDOInfectious Disease OntologyL92IDOBRUBrucellosis OntologyN93IDOMALMalaria OntologyL94INOInteraction Network OntologyL95KISAOKinetic Simulation Algorithm OntologyL96KTAOKidney Tissue Atlas OntologyN97LABOclinical LABoratory OntologyL98LINCS-CLOviewCLO LINCS viewN99LTHIDOLTHIDON100MAMouse adult gross anatomyL101MAMOMathematical modeling ontologyL102MAXOMedical Action OntologyL103MCOMicrobial Conditions OntologyL104MFMental Functioning OntologyL105MFMOMammalian Feeding Muscle OntologyL106MFOEMEmotion OntologyL107MFOMDMental Disease OntologyL108MIMolecular Interactions Controlled VocabularyL109MIAPAMIAPA OntologyL110MicrOOntology of Prokaryotic Phenotypic and Metabolic CharactersL111miRNAOmicroRNA OntologyL112MIROMosquito insecticide resistanceL113MMOMeasurement method ontologyL114MMUSDVMouse Developmental StagesL115MODProtein modificationL116MONDOMondo Disease OntologyL117MOPMolecular Process OntologyL118MPMammalian Phenotype OntologyL119MPATHMouse pathologyN120MPIOMinimum PDDI Information OntologyL121MROMHC Restriction OntologyL122MSMass spectrometry ontologyL123NBONeuro Behavior OntologyL124NCBITaxonNCBI organismal classificationL125NCITNCI Thesaurus OBO EditionL126NCRONon-Coding RNA OntologyL127NDF-RTNational Drug File Reference TerminologyN128NOMENNOMEN - A nomenclatural ontology for biological namesL129OAEOntology of Adverse EventsL130OARCSOntology of Arthropod Circulatory SystemsL131OBAOntology of Biological AttributesL132OBCSOntology of Biological and Clinical StatisticsL133OBIOntology for Biomedical InvestigationsF134OBI-NIAID-GSC-BRC-viewOBI NIAID-GSC-BRC viewN135OBIBOntology for BiobankingL136OBIwsOBI web service, development versionN137OCEOntology of Chemical ElementsN138OCMROntology of Chinese Medicine for RheumatismN139OCVDAEOntology of Cardiovascular Drug Adverse EventsN140ODAEOntology of Drug Adverse EventsN141ODNAEOntologyof Drug Neuropathy Adverse EventsN142OGGThe Ontology of Genes and GenomesL143OGG-AtOntology of Genes and Genomes - Arabidopsis thalianaN144OGG-BruOntology of Genes and Genomes - BrucellaN145OGG-CeOntology of Genes and Genomes - Caenorhabditis elegansN146OGG-DmOntology of Genes and Genomes - Fruit FlyN147OGG-DrOntology of Genes and Genomes - ZebrafishN148OGG-MmOntology of Genes and Genomes - MouseN149OGG-PfOntology of Genes and Genomes - Plasmodium falciparumN150OGG-ScOntology of Genes and Genomes - YeastN151OGIOntology for genetic intervalL152OGMSOntology for General Medical ScienceL153OGSFOntology of Genetic Susceptibility FactorL154OHDThe Oral Health and Disease OntologyL155OHMIOntology of Host-Microbiome InteractionsL156OHPIOntology of Host Pathogen InteractionsL157OLATDVMedaka Developmental StagesL158OLOBOOntology for Linking Biological and Medical OntologiesN159OMIABISOntologized MIABISL160OMITOntology for MIRNA TargetL161OMOOBO Metadata OntologyL162OMPOntology of Microbial PhenotypesL163OMRSEOntology of Medically Related Social EntitiesL164ONEOntology for Nutritional EpidemiologyL165ONSOntology for Nutritional StudiesL166ONTONEOObstetric and Neonatal OntologyL167OOSTTOntology of Organizational Structures of Trauma centers and Trauma systemsL168OPLOntology for Parasite LifeCycleL169OPMIOntology of Precision Medicine and InvestigationL170ORNASEQOntology of RNA SequencingL171OSCIOntology for Stem Cell InvestigationsN172OVAEOntology of Vaccine Adverse EventsL173PATOPhenotype And Trait OntologyF174PCOPopulation and Community OntologyL175PDROThe Prescription of Drugs OntologyL176PDUMDVPlatynereis Developmental StagesL177PECOPlant Experimental Conditions OntologyL178PHIPOPathogen Host Interaction Phenotype OntologyL179PLANAplanaria-ontologyL180PLANPPlanarian Phenotype OntologyL181PNOProper Name OntologyN182POPlant OntologyF183POROPorifera OntologyL184PPOPlant Phenology OntologyL185PRPRotein Ontology (PRO)F186PSDOPerformance Summary Display OntologyL187PSOPlant Stress OntologyL188PWPathway ontologyL189RBORadiation Biology OntologyL190REXPhysico-chemical processL191RNAORNA ontologyL192RORelation OntologyL193RSRat Strain OntologyL194RXNOName Reaction OntologyL195SBOSystems Biology OntologyL196SCDOSickle Cell Disease OntologyL197SDGIOSustainable Development Goals Interface OntologyN198SEPIOScientific Evidence and Provenance Information OntologyL199SIBOSocial Insect Behavior OntologyL200SIOSemanticscience Integrated OntologyN201SOSequence types and features ontologyL202SPDSpider OntologyL203STATOThe Statistical Methods OntologyL204SWOSoftware ontologyL205SYMPSymptom OntologyL206TADSTick Anatomy OntologyL207TAXRANKTaxonomic rank vocabularyL208TGMAMosquito gross anatomy ontologyL209TOPlant Trait OntologyL210TRANSPathogen Transmission OntologyL211TSOTransportation System OntologyN212TTOTeleost taxonomy ontologyL213TXPOToxic Process OntologyL214UBERONUberon multi-species anatomy ontologyL215UOUnits of measurement ontologyL216UPAUnipathwayL217UPHENOUnified phenotype ontology (uPheno)L218VariOVariation OntologyL219VICOVaccination Informed Consent OntologyN220VIOVaccine Investigation OntologyN221VIVO-ISFVIVO-ISFN222VOVaccine OntologyL223VTVertebrate trait ontologyL224VTOVertebrate Taxonomy OntologyL225WBbtC. elegans Gross Anatomy OntologyL226WBLSC. elegans development ontologyL227WBPhenotypeC. elegans phenotypeL228XAOXenopus Anatomy OntologyF229XCOExperimental condition ontologyL230XPOXenopus Phenotype OntologyL231ZECOZebrafish Experimental Conditions OntologyL232ZFAZebrafish anatomy and development ontologyF233ZFSZebrafish developmental stages ontologyL234ZPZebrafish Phenotype OntologyL

Please cite the following reference for Ontobee:

Ong E, Xiang Z, Zhao B, Liu Y, Lin Y, Zheng J, Mungall C, Courtot M, Ruttenberg A, He Y. Ontobee: A linked ontology data server to support ontology term dereferencing, linkage, query, and integration. Nucleic Acid Research. 2017 Jan 4;45(D1):D347-D352. PMID: 27733503. PMCID: PMC5210626.

Ontobee ICBO proceeding paper:

Xiang Z, Mungall C, Ruttenberg A, He Y. Ontobee: A Linked Data Server and Browser for Ontology Terms. Proceedings of the 2nd International Conference on Biomedical Ontologies (ICBO), July 28-30, 2011, Buffalo, NY, USA. Pages 279-281. URL: http://ceur-ws.org/Vol-833/paper48.pdf.

He Group
University of Michigan Medical School
Ann Arbor, MI 48109

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