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