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Welcome 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.

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Currently Ontobee has been applied for the following ontologies:

No. Ontology Prefix Ontology Full Name OBO List of Terms
1 AEO Anatomical Entity Ontology L
2 AGRO Agronomy Ontology L
3 AISM Ontology for the Anatomy of the Insect SkeletoMuscular system (AISM) L
4 AMPHX The Amphioxus Development and Anatomy Ontology L I'll Be In My Office Cute Funny Gardener Gift Zip Hoodie
5 APO Ascomycete phenotype ontology L
6 APOLLO_SV Apollo Structured Vocabulary L
7 ARO Antibiotic Resistance Ontology L
8 BCGO Beta Cell Genomics Ontology L
9 BCO Biological Collections Ontology L
10 BFO Basic Formal Ontology F
11 BFO11 Basic Formal Ontology (BFO) 1.1 L
12 BSPO Biological Spatial Ontology L
13 BTO BRENDA tissue / enzyme source L
14 CARO Common Anatomy Reference Ontology L
15 CDAO Comparative Data Analysis Ontology L
16 CDNO Compositional Dietary Nutrition Ontology L
17 CEPH Cephalopod Ontology L
18 CHEBI Chemical Entities of Biological Interest F
19 CHEMINF Chemical Information Ontology L
20 CHIRO CHEBI Integrated Role Ontology L
21 CHMO Chemical Methods Ontology L
22 CIDO Coronavirus Infectious Disease Ontology L
23 CIO Confidence Information Ontology L
24 CL Cell Ontology L
25 CLAO Collembola Anatomy Ontology L
26 CLO Cell Line Ontology L
27 CLO-hPSCreg Cell Line Ontology - Human Pluripotent Stem Cell Registry N
28 CLO-NICR Cell Line Ontology - Chinese National Infrastructure of Cell Line Resource N
29 Ambesonne Geometric Travel Pillow Neck Rest, Abstract Nostalgic Clytia hemisphaerica Development and Anatomy Ontology L
30 CMO Clinical measurement ontology L
31 COB Core Ontology for Biology and Biomedicine L
32 CRO Contributor Role Ontology L
33 CTCAE-OAEview OAE CTCAE view N
34 CTENO Ctenophore Ontology L
35 CTO CTO: Core Ontology of Clinical Trials L
36 CVDO Cardiovascular Disease Ontology L
37 d-acts Ontology of Document Acts N
38 DDANAT Dictyostelium discoideum anatomy L
39 DDPHENO Dictyostelium discoideum phenotype ontology L
40 DIDEO Drug-drug Interaction and Drug-drug Interaction Evidence Ontology L
41 DOID Human Disease Ontology F
42 DPO Drosophila Phenotype Ontology L
43 DRON The Drug Ontology L
44 DUO Data Use Ontology L
45 ECAO The Echinoderm Anatomy and Development Ontology L
46 ECO Evidence ontology L
47 ECOCORE An ontology of core ecological entities L
48 ECTO Environmental conditions, treatments and exposures ontology L
49 EDAM EMBRACE Data and Methods N
50 EFO Experimental Factor Ontology N
51 EHDAA2 Human developmental anatomy, abstract L
52 EMAPA Mouse Developmental Anatomy Ontology L
53 ENVO Environment Ontology L
54 EPO Epidemiology Ontology L
55 ERO eagle-i resource ontology L
56 EUPATH VEuPathDB ontology L
57 ExO Exposure ontology L
58 FAO Fungal gross anatomy L
59 FBBI Biological Imaging Methods Ontology L
60 FBBT Drosophila gross anatomy L
61 FBCV FlyBase Controlled Vocabulary L
62 FBdv Drosophila development L
63 FIDEO Food Interactions with Drugs Evidence Ontology L
64 FIX Physico-chemical methods and properties L
65 FLOPO Flora Phenotype Ontology L
66 FMA Foundational Model of Anatomy Ontology (subset) L
67 FOBI FOBI L
68 FOODON FOODON L
69 Hawaii Hawaiian Islands Souvenir Aloha Gift Sweatshirt FuTRES Ontology of Vertebrate Traits L face mask black african santa claus christmas Pullover Hoodie
70 FYPO Fission Yeast Phenotype Ontology L
71 GAZ Gazetteer L
72 GECKO Genomics Cohorts Knowledge Ontology L
73 GENEPIO Genomic Epidemiology Ontology L
74 GENO Genotype Ontology L
75 GEO Geographical Entity Ontology L
76 GNO Glycan Naming and Subsumption Ontology (GNOme) L
77 GO Gene Ontology F
78 GSSO Gender, Sex, and Sexual Orientation (GSSO) ontology L
79 HANCESTRO Human Ancestry Ontology L
80 HAO Hymenoptera Anatomy Ontology L
81 HOM Homology Ontology L
82 HP Human Phenotype Ontology L
83 HSAPDV Human Developmental Stages L
84 HSO Health Surveillance Ontology L
85 HTN Hypertension Ontology L
86 IAO Information Artifact Ontology L
87 IAO-Onto-Meta IAO Ontology Metadata N
88 ICDO International Classification of Disease Ontology N
89 ICEO Integrative and Conjugative Element Ontology L
90 ICO Informed Consent Ontology L
91 IDO Infectious Disease Ontology L
92 IDOBRU Brucellosis Ontology N
93 IDOMAL Malaria Ontology L
94 INO Interaction Network Ontology L Venice Italy Famous Sights Traveler Graphic Souvenir Long Sleeve
95 KISAO Kinetic Simulation Algorithm Ontology L
96 KTAO Kidney Tissue Atlas Ontology N
97 LABO clinical LABoratory Ontology L
98 LINCS-CLOview CLO LINCS view N
99 LTHIDO LTHIDO N
100 MA Mouse adult gross anatomy L
101 MAMO Mathematical modeling ontology L
102 MAXO Medical Action Ontology L Venice Beach California T-Shirt
103 MCO Microbial Conditions Ontology L
104 MF Mental Functioning Ontology L
105 MFMO Mammalian Feeding Muscle Ontology L
106 MFOEM Emotion Ontology L
107 MFOMD Mental Disease Ontology L
108 MI Molecular Interactions Controlled Vocabulary L
109 MIAPA MIAPA Ontology L
110 MicrO Ontology of Prokaryotic Phenotypic and Metabolic Characters L
111 miRNAO microRNA Ontology L
112 MIRO Mosquito insecticide resistance L
113 MMO Measurement method ontology L
114 MMUSDV Mouse Developmental Stages L
115 MOD Protein modification L
116 MONDO Mondo Disease Ontology L
117 MOP Molecular Process Ontology L
118 MP Mammalian Phenotype Ontology L
119 MPATH Mouse pathology N
120 MPIO Minimum PDDI Information Ontology L
121 MRO MHC Restriction Ontology L
122 MS Mass spectrometry ontology L
123 NBO Neuro Behavior Ontology L
124 NCBITaxon NCBI organismal classification L
125 NCIT NCI Thesaurus OBO Edition L
126 NCRO Non-Coding RNA Ontology L
127 NDF-RT National Drug File Reference Terminology N
128 NOMEN NOMEN - A nomenclatural ontology for biological names L
129 OAE Ontology of Adverse Events L
130 OARCS Ontology of Arthropod Circulatory Systems L
131 OBA Ontology of Biological Attributes L
132 OBCS Ontology of Biological and Clinical Statistics L
133 OBI Ontology for Biomedical Investigations F
134 OBI-NIAID-GSC-BRC-view OBI NIAID-GSC-BRC view N
135 OBIB Ontology for Biobanking L
136 OBIws OBI web service, development version N
137 OCE Ontology of Chemical Elements N
138 OCMR Ontology of Chinese Medicine for Rheumatism N
139 OCVDAE Ontology of Cardiovascular Drug Adverse Events N
140 ODAE Ontology of Drug Adverse Events N
141 ODNAE Ontologyof Drug Neuropathy Adverse Events N
142 OGG The Ontology of Genes and Genomes L
143 OGG-At Ontology of Genes and Genomes - Arabidopsis thaliana N
144 OGG-Bru Ontology of Genes and Genomes - Brucella N
145 OGG-Ce Ontology of Genes and Genomes - Caenorhabditis elegans N
146 OGG-Dm Ontology of Genes and Genomes - Fruit Fly N
147 OGG-Dr Ontology of Genes and Genomes - Zebrafish N
148 OGG-Mm Ontology of Genes and Genomes - Mouse N
149 OGG-Pf Ontology of Genes and Genomes - Plasmodium falciparum N
150 OGG-Sc Ontology of Genes and Genomes - Yeast N
151 OGI Ontology for genetic interval L
152 OGMS Ontology for General Medical Science L
153 OGSF Ontology of Genetic Susceptibility Factor L
154 OHD The Oral Health and Disease Ontology L
155 OHMI Ontology of Host-Microbiome Interactions L
156 OHPI Ontology of Host Pathogen Interactions L
157 OLATDV Medaka Developmental Stages L
158 OLOBO Ontology for Linking Biological and Medical Ontologies N
159 OMIABIS Ontologized MIABIS L
160 OMIT Ontology for MIRNA Target L
161 OMO OBO Metadata Ontology L
162 OMP Ontology of Microbial Phenotypes L
163 OMRSE Ontology of Medically Related Social Entities L
164 ONE Ontology for Nutritional Epidemiology L
165 ONS Ontology for Nutritional Studies L
166 ONTONEO Obstetric and Neonatal Ontology L
167 OOSTT Ontology of Organizational Structures of Trauma centers and Trauma systems L
168 OPL Ontology for Parasite LifeCycle L
169 OPMI Ontology of Precision Medicine and Investigation L
170 ORNASEQ Ontology of RNA Sequencing L
171 OSCI Ontology for Stem Cell Investigations N
172 OVAE Ontology of Vaccine Adverse Events L
173 PATO Phenotype And Trait Ontology F
174 PCO Population and Community Ontology L
175 PDRO The Prescription of Drugs Ontology L
176 PDUMDV Platynereis Developmental Stages L
177 PECO Plant Experimental Conditions Ontology L
178 PHIPO Pathogen Host Interaction Phenotype Ontology L
179 PLANA planaria-ontology L
180 PLANP Planarian Phenotype Ontology L
181 PNO Proper Name Ontology N
182 PO Plant Ontology F
183 PORO Porifera Ontology L
184 PPO Plant Phenology Ontology L
185 PR PRotein Ontology (PRO) F
186 PSDO Performance Summary Display Ontology L
187 PSO Plant Stress Ontology L
188 PW Pathway ontology L
189 RBO Radiation Biology Ontology L
190 REX Physico-chemical process L
191 RNAO RNA ontology L
192 RO Relation Ontology L
193 RS Rat Strain Ontology L
194 RXNO Name Reaction Ontology L
195 SBO Systems Biology Ontology L
196 SCDO Sickle Cell Disease Ontology L
197 SDGIO Sustainable Development Goals Interface Ontology N
198 SEPIO Scientific Evidence and Provenance Information Ontology L
199 SIBO Social Insect Behavior Ontology L
200 SIO Semanticscience Integrated Ontology N
201 SO Sequence types and features ontology L
202 SPD Spider Ontology L
203 STATO The Statistical Methods Ontology L
204 SWO Software ontology L
205 SYMP Symptom Ontology L
206 TADS Tick Anatomy Ontology L
207 TAXRANK Taxonomic rank vocabulary L
208 TGMA Mosquito gross anatomy ontology L
209 TO Plant Trait Ontology L
210 TRANS Pathogen Transmission Ontology L
211 TSO Transportation System Ontology N
212 TTO Teleost taxonomy ontology L Her Royal Nineness 9th Birthday Gift for Nine Year Old Girl T-Sh
213 TXPO Toxic Process Ontology L
214 UBERON Uberon multi-species anatomy ontology L
215 UO Units of measurement ontology L
216 UPA Unipathway L
217 UPHENO Unified phenotype ontology (uPheno) L
218 VariO Variation Ontology L
219 VICO Vaccination Informed Consent Ontology N
220 VIO Vaccine Investigation Ontology N
221 VIVO-ISF VIVO-ISF N
222 VO Vaccine Ontology L
223 VT Vertebrate trait ontology L
224 VTO Vertebrate Taxonomy Ontology L
225 WBbt C. elegans Gross Anatomy Ontology L
226 WBLS C. elegans development ontology L
227 WBPhenotype C. elegans phenotype L
228 XAO Xenopus Anatomy Ontology F
229 XCO Experimental condition ontology L
230 XPO Xenopus Phenotype Ontology L
231 ZECO Zebrafish Experimental Conditions Ontology L
232 ZFA Zebrafish anatomy and development ontology F Mini Bamboo Chinese Tea Tray - 11.5” Japanese Tea Serving Tray,
233 ZFS Zebrafish developmental stages ontology L
234 ZP Zebrafish Phenotype Ontology L

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 integrationNucleic 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.