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