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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.

Jump to http://purl.obolibrary.org/obo/

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 Excel XLSX format Tab Separated format
2 AGRO Agronomy Ontology L Excel XLSX format Tab Separated format
3 APO Ascomycete phenotype ontology L Excel XLSX format Tab Separated format
4 APOLLO_SV Apollo Structured Vocabulary L Excel XLSX format Tab Separated format
5 ARO Antibiotic Resistance Ontology L Excel XLSX format Tab Separated format
6 BCGO Beta Cell Genomics Ontology L Excel XLSX format Tab Separated format
7 BCO Biological Collections Ontology L Excel XLSX format Tab Separated format
8 BFO Basic Formal Ontology F Excel XLSX format Tab Separated format
9 BFO11 Basic Formal Ontology (BFO) 1.1 L Excel XLSX format Tab Separated format
10 BSPO Biological Spatial Ontology L Excel XLSX format Tab Separated format
11 BTO BRENDA tissue / enzyme source L Excel XLSX format Tab Separated format
12 CARO Common Anatomy Reference Ontology L Excel XLSX format Tab Separated format
13 CDAO Comparative Data Analysis Ontology L Excel XLSX format Tab Separated format
14 CEPH Cephalopod Ontology L Excel XLSX format Tab Separated format
15 CHEBI Chemical Entities of Biological Interest F Excel XLSX format Tab Separated format
16 CHEMINF Chemical Information Ontology L Excel XLSX format Tab Separated format
17 CHMO Chemical Methods Ontology L Excel XLSX format Tab Separated format
18 CIO Confidence Information Ontology L Excel XLSX format Tab Separated format
19 CL Cell Ontology L Excel XLSX format Tab Separated format
20 CLO Cell Line Ontology L Excel XLSX format Tab Separated format
21 CLO-hPSCreg Cell Line Ontology - Human Pluripotent Stem Cell Registry N Excel XLSX format Tab Separated format
22 CLO-NICR Cell Line Ontology - Chinese National Infrastructure of Cell Line Resource N Excel XLSX format Tab Separated format
23 CMO Clinical measurement ontology L Excel XLSX format Tab Separated format
24 CRO Contributor Role Ontology L Excel XLSX format Tab Separated format
25 CTCAE-OAEview OAE CTCAE view N Excel XLSX format Tab Separated format
26 CTENO Ctenophore Ontology L Excel XLSX format Tab Separated format
27 CVDO Cardiovascular Disease Ontology L Excel XLSX format Tab Separated format
28 d-acts Ontology of Document Acts N Excel XLSX format Tab Separated format
29 DDANAT Dictyostelium discoideum anatomy L Excel XLSX format Tab Separated format
30 DDPHENO Dictyostelium discoideum phenotype ontology L Excel XLSX format Tab Separated format
31 DIDEO Drug-drug Interaction and Drug-drug Interaction Evidence Ontology L Excel XLSX format Tab Separated format
32 DOID Human Disease Ontology F Excel XLSX format Tab Separated format
33 DPO Drosophila Phenotype Ontology L Excel XLSX format Tab Separated format
34 DRON The Drug Ontology L Excel XLSX format Tab Separated format
35 DUO The Data Use Ontology L Excel XLSX format Tab Separated format
36 ECO Evidence ontology L Excel XLSX format Tab Separated format
37 ECOCORE An ontology of core ecological entities L Excel XLSX format Tab Separated format
38 EDAM EMBRACE Data and Methods N Excel XLSX format Tab Separated format
39 EFO Experimental Factor Ontology N Excel XLSX format Tab Separated format
40 EHDAA2 Human developmental anatomy, abstract L Excel XLSX format Tab Separated format
41 EMAPA Mouse gross anatomy and development, timed L Excel XLSX format Tab Separated format
42 ENVO Environment Ontology L Excel XLSX format Tab Separated format
43 EPO Epidemiology Ontology L Excel XLSX format Tab Separated format
44 ERO eagle-i resource ontology L Excel XLSX format Tab Separated format
45 EUPATH EuPathDB ontology L Excel XLSX format Tab Separated format
46 ExO Exposure ontology L Excel XLSX format Tab Separated format
47 FAO Fungal gross anatomy L Excel XLSX format Tab Separated format
48 FBBI Biological Imaging Methods Ontology L Excel XLSX format Tab Separated format
49 FBBT Drosophila gross anatomy L Excel XLSX format Tab Separated format
50 FBCV FlyBase Controlled Vocabulary L Excel XLSX format Tab Separated format
51 FBdv Drosophila development L Excel XLSX format Tab Separated format
52 FIX Physico-chemical methods and properties L Excel XLSX format Tab Separated format
53 FLOPO Flora Phenotype Ontology L Excel XLSX format Tab Separated format
54 FMA Foundational Model of Anatomy Ontology (subset) L Excel XLSX format Tab Separated format
55 FOODON FOODON L Excel XLSX format Tab Separated format
56 FYPO Fission Yeast Phenotype Ontology L Excel XLSX format Tab Separated format
57 GAZ Gazetteer L Excel XLSX format Tab Separated format
58 GENEPIO Genomic Epidemiology Ontology L Excel XLSX format Tab Separated format
59 GENO Genotype Ontology L Excel XLSX format Tab Separated format
60 GEO Geographical Entity Ontology L Excel XLSX format Tab Separated format
61 GO Gene Ontology F Excel XLSX format Tab Separated format
62 HANCESTRO Human Ancestry Ontology L Excel XLSX format Tab Separated format
63 HAO Hymenoptera Anatomy Ontology L Excel XLSX format Tab Separated format
64 HOM Homology Ontology L Excel XLSX format Tab Separated format
65 HP Human Phenotype Ontology L Excel XLSX format Tab Separated format
66 HSAPDV Human Developmental Stages L Excel XLSX format Tab Separated format
67 IAO Information Artifact Ontology L Excel XLSX format Tab Separated format
68 IAO-Onto-Meta IAO Ontology Metadata N Excel XLSX format Tab Separated format
69 ICDO International Classification of Disease Ontology N Excel XLSX format Tab Separated format
70 ICEO Integrative and Conjugative Element Ontology N Excel XLSX format Tab Separated format
71 ICO Informed Consent Ontology L Excel XLSX format Tab Separated format
72 IDO Infectious Disease Ontology L Excel XLSX format Tab Separated format
73 IDOBRU Brucellosis Ontology N Excel XLSX format Tab Separated format
74 IDOMAL Malaria Ontology L Excel XLSX format Tab Separated format
75 INO Interaction Network Ontology L Excel XLSX format Tab Separated format
76 KISAO Kinetic Simulation Algorithm Ontology L Excel XLSX format Tab Separated format
77 KTAO Kidney Tissue Atlas Ontology N Excel XLSX format Tab Separated format
78 LINCS-CLOview CLO LINCS view N Excel XLSX format Tab Separated format
79 MA Mouse adult gross anatomy L Excel XLSX format Tab Separated format
80 MAMO Mathematical modeling ontology L Excel XLSX format Tab Separated format
81 MCO Microbial Conditions Ontology L Excel XLSX format Tab Separated format
82 MF Mental Functioning Ontology L Excel XLSX format Tab Separated format
83 MFMO Mammalian Feeding Muscle Ontology L Excel XLSX format Tab Separated format
84 MFOEM Emotion Ontology L Excel XLSX format Tab Separated format
85 MFOMD Mental Disease Ontology L Excel XLSX format Tab Separated format
86 MI Molecular Interactions Controlled Vocabulary L Excel XLSX format Tab Separated format
87 MIAPA MIAPA Ontology L Excel XLSX format Tab Separated format
88 miRNAO microRNA Ontology L Excel XLSX format Tab Separated format
89 MIRO Mosquito insecticide resistance L Excel XLSX format Tab Separated format
90 MMO Measurement method ontology L Excel XLSX format Tab Separated format
91 MMUSDV Mouse Developmental Stages L Excel XLSX format Tab Separated format
92 MOD Protein modification L Excel XLSX format Tab Separated format
93 MONDO Monarch Disease Ontology L Excel XLSX format Tab Separated format
94 MOP Molecular Process Ontology L Excel XLSX format Tab Separated format
95 MP Mammalian Phenotype L Excel XLSX format Tab Separated format
96 MPATH Mouse pathology N Excel XLSX format Tab Separated format
97 MPIO Minimum PDDI Information Ontology L Excel XLSX format Tab Separated format
98 MRO MHC Restriction Ontology L Excel XLSX format Tab Separated format
99 MS Mass spectrometry ontology L Excel XLSX format Tab Separated format
100 NBO Neuro Behavior Ontology L Excel XLSX format Tab Separated format
101 NCBITaxon NCBI organismal classification L Excel XLSX format Tab Separated format
102 NCIT NCI Thesaurus OBO Edition L Excel XLSX format Tab Separated format
103 NCRO Non-Coding RNA Ontology L Excel XLSX format Tab Separated format
104 NDF-RT National Drug File Reference Terminology N Excel XLSX format Tab Separated format
105 NOMEN NOMEN - A nomenclatural ontology for biological names L Excel XLSX format Tab Separated format
106 OAE Ontology of Adverse Events L Excel XLSX format Tab Separated format
107 OARCS Ontology of Arthropod Circulatory Systems L Excel XLSX format Tab Separated format
108 OBA Ontology of Biological Attributes L Excel XLSX format Tab Separated format
109 OBCS Ontology of Biological and Clinical Statistics L Excel XLSX format Tab Separated format
110 OBI Ontology for Biomedical Investigations F Excel XLSX format Tab Separated format
111 OBI-NIAID-GSC-BRC-view OBI NIAID-GSC-BRC view N Excel XLSX format Tab Separated format
112 OBIB Ontology for Biobanking L Excel XLSX format Tab Separated format
113 OBIws OBI web service, development version N Excel XLSX format Tab Separated format
114 OCMR Ontology of Chinese Medicine for Rheumatism N Excel XLSX format Tab Separated format
115 OCVDAE Ontology of Cardiovascular Drug Adverse Events N Excel XLSX format Tab Separated format
116 ODAE Ontology of Drug Adverse Events N Excel XLSX format Tab Separated format
117 ODNAE Ontologyof Drug Neuropathy Adverse Events N Excel XLSX format Tab Separated format
118 OGG The Ontology of Genes and Genomes L Excel XLSX format Tab Separated format
119 OGG-At Ontology of Genes and Genomes - Arabidopsis thaliana N Excel XLSX format Tab Separated format
120 OGG-Bru Ontology of Genes and Genomes - Brucella N Excel XLSX format Tab Separated format
121 OGG-Ce Ontology of Genes and Genomes - Caenorhabditis elegans N Excel XLSX format Tab Separated format
122 OGG-Dm Ontology of Genes and Genomes - Fruit Fly N Excel XLSX format Tab Separated format
123 OGG-Dr Ontology of Genes and Genomes - Zebrafish N Excel XLSX format Tab Separated format
124 OGG-Mm Ontology of Genes and Genomes - Mouse N Excel XLSX format Tab Separated format
125 OGG-Pf Ontology of Genes and Genomes - Plasmodium falciparum N Excel XLSX format Tab Separated format
126 OGG-Sc Ontology of Genes and Genomes - Yeast N Excel XLSX format Tab Separated format
127 OGI Ontology for genetic interval L Excel XLSX format Tab Separated format
128 OGMS Ontology for General Medical Science L Excel XLSX format Tab Separated format
129 OGSF Ontology of Genetic Susceptibility Factor L Excel XLSX format Tab Separated format
130 OHD The Oral Health and Disease Ontology L Excel XLSX format Tab Separated format
131 OHMI Ontology of Host-Microbiome Interactions L Excel XLSX format Tab Separated format
132 OHPI Ontology of Host-Pathogen Interactions N Excel XLSX format Tab Separated format
133 OLATDV Medaka Developmental Stages L Excel XLSX format Tab Separated format
134 OLOBO Ontology for Linking Biological and Medical Ontologies N Excel XLSX format Tab Separated format
135 OMIABIS Ontologized MIABIS L Excel XLSX format Tab Separated format
136 OMIT Ontology for MIRNA Target L Excel XLSX format Tab Separated format
137 OMP Ontology of Microbial Phenotypes L Excel XLSX format Tab Separated format
138 OMRSE Ontology of Medically Related Social Entities L Excel XLSX format Tab Separated format
139 ONTONEO Obstetric and Neonatal Ontology L Excel XLSX format Tab Separated format
140 OOSTT Ontology of Organizational Structures of Trauma centers and Trauma systems L Excel XLSX format Tab Separated format
141 OPL Ontology for Parasite LifeCycle L Excel XLSX format Tab Separated format
142 OPMI Ontology of Precision Medicine and Investigation L Excel XLSX format Tab Separated format
143 OSCI Ontology for Stem Cell Investigations N Excel XLSX format Tab Separated format
144 OVAE Ontology of Vaccine Adverse Events L Excel XLSX format Tab Separated format
145 PATO Phenotype And Trait Ontology F Excel XLSX format Tab Separated format
146 PCO Population and Community Ontology L Excel XLSX format Tab Separated format
147 PDRO The Prescription of Drugs Ontology L Excel XLSX format Tab Separated format
148 PDUMDV Platynereis Developmental Stages L Excel XLSX format Tab Separated format
149 PECO Plant Experimental Conditions Ontology L Excel XLSX format Tab Separated format
150 PHIPO Pathogen Host Interaction Phenotype Ontology L Excel XLSX format Tab Separated format
151 PLANA planaria-ontology L Excel XLSX format Tab Separated format
152 PLANP Planarian Phenotype Ontology L Excel XLSX format Tab Separated format
153 PNO Proper Name Ontology N Excel XLSX format Tab Separated format
154 PO Plant Ontology F Excel XLSX format Tab Separated format
155 PORO Porifera Ontology L Excel XLSX format Tab Separated format
156 PPO Plant Phenology Ontology L Excel XLSX format Tab Separated format
157 PR PRotein Ontology (PRO) F Excel XLSX format Tab Separated format
158 PW Pathway ontology L Excel XLSX format Tab Separated format
159 REX Physico-chemical process L Excel XLSX format Tab Separated format
160 RNAO RNA ontology L Excel XLSX format Tab Separated format
161 RO Relation Ontology L Excel XLSX format Tab Separated format
162 RS Rat Strain Ontology L Excel XLSX format Tab Separated format
163 RXNO Name Reaction Ontology L Excel XLSX format Tab Separated format
164 SBO Systems Biology Ontology L Excel XLSX format Tab Separated format
165 SDGIO Sustainable Development Goals Interface Ontology N Excel XLSX format Tab Separated format
166 SIBO Social Insect Behavior Ontology L Excel XLSX format Tab Separated format
167 SIO Semanticscience Integrated Ontology N Excel XLSX format Tab Separated format
168 SO Sequence types and features ontology L Excel XLSX format Tab Separated format
169 SPD Spider Ontology L Excel XLSX format Tab Separated format
170 STATO The Statistical Methods Ontology L Excel XLSX format Tab Separated format
171 SWO Software ontology L Excel XLSX format Tab Separated format
172 SYMP Symptom Ontology L Excel XLSX format Tab Separated format
173 TADS Tick Anatomy Ontology L Excel XLSX format Tab Separated format
174 TAXRANK Taxonomic rank vocabulary L Excel XLSX format Tab Separated format
175 TGMA Mosquito gross anatomy ontology L Excel XLSX format Tab Separated format
176 TO Plant Trait Ontology L Excel XLSX format Tab Separated format
177 TRANS Pathogen Transmission Ontology L Excel XLSX format Tab Separated format
178 TTO Teleost taxonomy ontology L Excel XLSX format Tab Separated format
179 UBERON Uberon multi-species anatomy ontology L Excel XLSX format Tab Separated format
180 UO Units of measurement ontology L Excel XLSX format Tab Separated format
181 UPHENO Unified phenotype ontology (uPheno) L Excel XLSX format Tab Separated format
182 VariO Variation Ontology L Excel XLSX format Tab Separated format
183 VICO Vaccination Informed Consent Ontology N Excel XLSX format Tab Separated format
184 VIO Vaccine Investigation Ontology N Excel XLSX format Tab Separated format
185 VIVO-ISF VIVO-ISF N Excel XLSX format Tab Separated format
186 VO Vaccine Ontology L Excel XLSX format Tab Separated format
187 VT Vertebrate trait ontology L Excel XLSX format Tab Separated format
188 VTO Vertebrate Taxonomy Ontology L Excel XLSX format Tab Separated format
189 WBbt C. elegans Gross Anatomy Ontology L Excel XLSX format Tab Separated format
190 WBLS C. elegans development ontology L Excel XLSX format Tab Separated format
191 WBPhenotype C. elegans phenotype L Excel XLSX format Tab Separated format
192 XAO Xenopus Anatomy Ontology F Excel XLSX format Tab Separated format
193 XCO Experimental condition ontology L Excel XLSX format Tab Separated format
194 XPO Xenopus Phenotype Ontology L Excel XLSX format Tab Separated format
195 ZECO Zebrafish Experimental Conditions Ontology L Excel XLSX format Tab Separated format
196 ZFA Zebrafish anatomy and development ontology F Excel XLSX format Tab Separated format
197 ZFS Zebrafish developmental stages ontology L Excel XLSX format Tab Separated format
198 ZP Zebrafish Phenotype Ontology L Excel XLSX format Tab Separated format

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.