Logo
Home Introduction Statistics SPARQL Ontobeep Tutorial FAQs References Links Contact Acknowledge News

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 AERO Adverse Event Reporting Ontology L Excel XLSX format Tab Separated format
3 AGRO Agronomy Ontology L Excel XLSX format Tab Separated format
4 APO Ascomycete phenotype ontology L Excel XLSX format Tab Separated format
5 APOLLO_SV Apollo Structured Vocabulary N 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 BILA Bilateria anatomy N Excel XLSX format Tab Separated format
11 BSPO Biological Spatial Ontology L Excel XLSX format Tab Separated format
12 BTO BRENDA tissue / enzyme source L Excel XLSX format Tab Separated format
13 CARO Common Anatomy Reference Ontology L Excel XLSX format Tab Separated format
14 CDAO Comparative Data Analysis Ontology L Excel XLSX format Tab Separated format
15 CEPH Cephalopod Ontology L Excel XLSX format Tab Separated format
16 CHEBI Chemical Entities of Biological Interest F Excel XLSX format Tab Separated format
17 CHEMINF Chemical Information Ontology L Excel XLSX format Tab Separated format
18 CHMO Chemical Methods Ontology L Excel XLSX format Tab Separated format
19 CIO Confidence Information Ontology L Excel XLSX format Tab Separated format
20 CL Cell Ontology L Excel XLSX format Tab Separated format
21 CLO Cell Line Ontology L Excel XLSX format Tab Separated format
22 CMO Clinical measurement 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 L Excel XLSX format Tab Separated format
28 DIDEO Drug Interaction and 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 EDAM EMBRACE Data and Methods N Excel XLSX format Tab Separated format
36 EFO Experimental Factor Ontology N Excel XLSX format Tab Separated format
37 EHDA Human developmental anatomy, timed version N Excel XLSX format Tab Separated format
38 EHDAA Human developmental anatomy, abstract version N Excel XLSX format Tab Separated format
39 EHDAA2 Human developmental anatomy, abstract L Excel XLSX format Tab Separated format
40 EMAP Mouse gross anatomy and development, timed 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 EO Plant Environment Ontology L Excel XLSX format Tab Separated format
44 EPO Epidemiology Ontology L Excel XLSX format Tab Separated format
45 ERO eagle-i resource 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 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 FBsp Fly taxonomy N Excel XLSX format Tab Separated format
53 FIX Physico-chemical methods and properties L Excel XLSX format Tab Separated format
54 FLOPO Flora Phenotype Ontology L Excel XLSX format Tab Separated format
55 FLU Influenza Ontology L Excel XLSX format Tab Separated format
56 FMA Foundational Model of Anatomy (subset) L Excel XLSX format Tab Separated format
57 FOODON FOODON L Excel XLSX format Tab Separated format
58 FYPO Fission Yeast Phenotype Ontology L Excel XLSX format Tab Separated format
59 GAZ Gazetteer L Excel XLSX format Tab Separated format
60 GENEPIO Genomic Epidemiology Ontology L Excel XLSX format Tab Separated format
61 GENO Genotype Ontology L Excel XLSX format Tab Separated format
62 GEO Geographical Entity Ontology L Excel XLSX format Tab Separated format
63 GO Gene Ontology F Excel XLSX format Tab Separated format
64 HAO Hymenoptera Anatomy Ontology L Excel XLSX format Tab Separated format
65 HOM Homology Ontology L Excel XLSX format Tab Separated format
66 HP human phenotype ontology L Excel XLSX format Tab Separated format
67 HSAPDV Human Developmental Stages L Excel XLSX format Tab Separated format
68 IAO Information Artifact Ontology L Excel XLSX format Tab Separated format
69 IAO-Onto-Meta IAO Ontology Metadata N Excel XLSX format Tab Separated format
70 ICO Informed Consent Ontology L Excel XLSX format Tab Separated format
71 IDO Infectious disease L Excel XLSX format Tab Separated format
72 IDOMAL Malaria Ontology L Excel XLSX format Tab Separated format
73 INO Interaction Network Ontology N Excel XLSX format Tab Separated format
74 KISAO Kinetic Simulation Algorithm Ontology L Excel XLSX format Tab Separated format
75 LINCS-CLOview CLO LINCS view N Excel XLSX format Tab Separated format
76 MA Mouse adult gross anatomy L Excel XLSX format Tab Separated format
77 MAMO Mathematical modeling ontology L Excel XLSX format Tab Separated format
78 MAT Minimal anatomical terminology N Excel XLSX format Tab Separated format
79 MF Mental Functioning Ontology L Excel XLSX format Tab Separated format
80 MFOEM Emotion Ontology L Excel XLSX format Tab Separated format
81 MI Molecular interactions L Excel XLSX format Tab Separated format
82 miRNAO microRNA Ontology L Excel XLSX format Tab Separated format
83 MIRO Mosquito insecticide resistance L Excel XLSX format Tab Separated format
84 MMO Measurement method ontology L Excel XLSX format Tab Separated format
85 MMUSDV Mouse Developmental Stages L Excel XLSX format Tab Separated format
86 MO Microarray experimental conditions N Excel XLSX format Tab Separated format
87 MOD Protein modification L Excel XLSX format Tab Separated format
88 MONDO Monarch Disease Ontology L Excel XLSX format Tab Separated format
89 MOP Molecular Process Ontology L Excel XLSX format Tab Separated format
90 MP Mammalian phenotype L Excel XLSX format Tab Separated format
91 MPATH Mouse pathology N Excel XLSX format Tab Separated format
92 MRO MHC Restriction Ontology L Excel XLSX format Tab Separated format
93 MS Mass spectrometry ontology L Excel XLSX format Tab Separated format
94 NBO Neuro Behavior Ontology L Excel XLSX format Tab Separated format
95 NCBITaxon NCBI organismal classification L Excel XLSX format Tab Separated format
96 NCIT NCI Thesaurus OBO Edition L Excel XLSX format Tab Separated format
97 NCRO Non-Coding RNA Ontology L Excel XLSX format Tab Separated format
98 NDF-RT National Drug File Reference Terminology N Excel XLSX format Tab Separated format
99 NIF_Cell NIF Cell N Excel XLSX format Tab Separated format
100 NIF_Dysfunction NIF Dysfunction N Excel XLSX format Tab Separated format
101 NIF_GrossAnatomy NIF Gross Anatomy N Excel XLSX format Tab Separated format
102 NMR NMR-instrument specific component of metabolomics investigations N Excel XLSX format Tab Separated format
103 OAE Ontology of Adverse Events L Excel XLSX format Tab Separated format
104 OARCS Ontology of Arthropod Circulatory Systems L Excel XLSX format Tab Separated format
105 OBA Ontology of Biological Attributes L Excel XLSX format Tab Separated format
106 OBCS Ontology of Biological and Clinical Statistics L Excel XLSX format Tab Separated format
107 OBI Ontology for Biomedical Investigations F Excel XLSX format Tab Separated format
108 OBI-NIAID-GSC-BRC-view OBI NIAID-GSC-BRC view N Excel XLSX format Tab Separated format
109 OBIB Ontology for Biobanking L Excel XLSX format Tab Separated format
110 OBIws OBI web service, development version N Excel XLSX format Tab Separated format
111 OCMR Ontology of Chinese Medicine for Rheumatism N Excel XLSX format Tab Separated format
112 OCVDAE Ontology of Cardiovascular Drug Adverse Events N Excel XLSX format Tab Separated format
113 ODNAE Ontologyof Drug Neuropathy Adverse Events N Excel XLSX format Tab Separated format
114 OGG The Ontology of Genes and Genomes L Excel XLSX format Tab Separated format
115 OGG-At Ontology of Genes and Genomes - Arabidopsis thaliana N Excel XLSX format Tab Separated format
116 OGG-Bru Ontology of Genes and Genomes - Brucella N Excel XLSX format Tab Separated format
117 OGG-Ce Ontology of Genes and Genomes - Caenorhabditis elegans N Excel XLSX format Tab Separated format
118 OGG-Dm Ontology of Genes and Genomes - Fruit Fly N Excel XLSX format Tab Separated format
119 OGG-Dr Ontology of Genes and Genomes - Zebrafish N Excel XLSX format Tab Separated format
120 OGG-Mm Ontology of Genes and Genomes - Mouse N Excel XLSX format Tab Separated format
121 OGG-Pf Ontology of Genes and Genomes - Plasmodium falciparum N Excel XLSX format Tab Separated format
122 OGG-Sc Ontology of Genes and Genomes - Yeast N Excel XLSX format Tab Separated format
123 OGI Ontology for genetic interval L Excel XLSX format Tab Separated format
124 OGMS Ontology for General Medical Science L Excel XLSX format Tab Separated format
125 OGSF Ontology of Genetic Susceptibility Factor L Excel XLSX format Tab Separated format
126 OHD The Oral Health and Disease Ontology L Excel XLSX format Tab Separated format
127 OHMI Ontology of Host-Microbiome Interactions L Excel XLSX format Tab Separated format
128 OLATDV Medaka Developmental Stages L Excel XLSX format Tab Separated format
129 OLOBO Ontology for Linking Biological and Medical Ontologies N Excel XLSX format Tab Separated format
130 OMIABIS Ontologized MIABIS L Excel XLSX format Tab Separated format
131 OMIT Ontology for MIRNA Target L Excel XLSX format Tab Separated format
132 OMP Ontology of Microbial Phenotypes L Excel XLSX format Tab Separated format
133 OMRSE Ontology of Medically Related Social Entities L Excel XLSX format Tab Separated format
134 ONTONEO Obstetric and Neonatal Ontology L Excel XLSX format Tab Separated format
135 OOSTT Ontology of Organizational Structures of Trauma centers and Trauma systems L Excel XLSX format Tab Separated format
136 OPL Ontology for Parasite LifeCycle L Excel XLSX format Tab Separated format
137 OVAE Ontology of Vaccine Adverse Events L Excel XLSX format Tab Separated format
138 PATO Phenotypic quality F Excel XLSX format Tab Separated format
139 PCO Population and Community Ontology L Excel XLSX format Tab Separated format
140 PDRO The Prescription of Drugs Ontology L Excel XLSX format Tab Separated format
141 PDUMDV Platynereis Developmental Stages 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 ProPreO Proteomics data and process provenance N Excel XLSX format Tab Separated format
149 PW Pathway ontology L Excel XLSX format Tab Separated format
150 REX Physico-chemical process L Excel XLSX format Tab Separated format
151 RNAO RNA ontology L Excel XLSX format Tab Separated format
152 RO Relations Ontology L Excel XLSX format Tab Separated format
153 RS Rat Strain Ontology L Excel XLSX format Tab Separated format
154 RXNO Name Reaction Ontology L Excel XLSX format Tab Separated format
155 SAO Subcellular anatomy ontology N Excel XLSX format Tab Separated format
156 SBO Systems Biology L Excel XLSX format Tab Separated format
157 SIBO Social Insect Behavior Ontology L Excel XLSX format Tab Separated format
158 SIO Semanticscience Integrated Ontology N Excel XLSX format Tab Separated format
159 SO Sequence types and features L Excel XLSX format Tab Separated format
160 SPD Spider Ontology L Excel XLSX format Tab Separated format
161 STATO The Statistical Methods Ontology L Excel XLSX format Tab Separated format
162 SWO Software ontology L Excel XLSX format Tab Separated format
163 SYMP Symptom Ontology L Excel XLSX format Tab Separated format
164 TADS Tick gross anatomy L Excel XLSX format Tab Separated format
165 TAO Teleost Anatomy Ontology N Excel XLSX format Tab Separated format
166 TAXRANK Taxonomic rank vocabulary L Excel XLSX format Tab Separated format
167 TGMA Mosquito gross anatomy L Excel XLSX format Tab Separated format
168 TO Plant Trait Ontology L Excel XLSX format Tab Separated format
169 TRANS Pathogen Transmission Ontology L Excel XLSX format Tab Separated format
170 TTO Teleost taxonomy L Excel XLSX format Tab Separated format
171 UBERON Uberon multi-species anatomy ontology L Excel XLSX format Tab Separated format
172 UO Units of measurement L Excel XLSX format Tab Separated format
173 VariO Variation Ontology L Excel XLSX format Tab Separated format
174 VHOG verteberate Homologous Organ Groups N Excel XLSX format Tab Separated format
175 VICO Vaccination Informed Consent Ontology N Excel XLSX format Tab Separated format
176 VIVO-ISF VIVO-ISF N Excel XLSX format Tab Separated format
177 VO Vaccine Ontology L Excel XLSX format Tab Separated format
178 VT Vertebrate trait L Excel XLSX format Tab Separated format
179 VTO Vertebrate Taxonomy Ontology L Excel XLSX format Tab Separated format
180 WBbt C. elegans gross anatomy L Excel XLSX format Tab Separated format
181 WBLS C. elegans development L Excel XLSX format Tab Separated format
182 WBPhenotype C. elegans phenotype L Excel XLSX format Tab Separated format
183 XAO Xenopus anatomy and development F Excel XLSX format Tab Separated format
184 XCO Experimental condition ontology L Excel XLSX format Tab Separated format
185 YPO Yeast phenotypes N Excel XLSX format Tab Separated format
186 ZECO Zebrafish Experimental Conditions Ontology L Excel XLSX format Tab Separated format
187 ZFA Zebrafish anatomy and development F Excel XLSX format Tab Separated format
188 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.