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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 BCGO Beta Cell Genomics Ontology L Excel XLSX format Tab Separated format
6 BCO Biological Collections Ontology L Excel XLSX format Tab Separated format
7 BFO Basic Formal Ontology L Excel XLSX format Tab Separated format
8 BFO11 Basic Formal Ontology (BFO) 1.1 L Excel XLSX format Tab Separated format
9 BILA Bilateria anatomy N Excel XLSX format Tab Separated format
10 BSPO Biological Spatial Ontology L Excel XLSX format Tab Separated format
11 CARO Common Anatomy Reference Ontology L Excel XLSX format Tab Separated format
12 CDAO Comparative Data Analysis Ontology L Excel XLSX format Tab Separated format
13 CEPH Cephalopod Ontology L Excel XLSX format Tab Separated format
14 CHEBI Chemical Entities of Biological Interest F Excel XLSX format Tab Separated format
15 CHEMINF Chemical Information Ontology L Excel XLSX format Tab Separated format
16 CHMO Chemical Methods Ontology L Excel XLSX format Tab Separated format
17 CIO Confidence Information Ontology L Excel XLSX format Tab Separated format
18 CL Cell Ontology L Excel XLSX format Tab Separated format
19 CLO Cell Line Ontology L Excel XLSX format Tab Separated format
20 CMO Clinical measurement ontology L Excel XLSX format Tab Separated format
21 CTCAE-OAEview OAE CTCAE view N Excel XLSX format Tab Separated format
22 CTENO Ctenophore Ontology L Excel XLSX format Tab Separated format
23 d-acts Ontology of Document Acts N Excel XLSX format Tab Separated format
24 DDPHENO Dictyostelium discoideum phenotype L Excel XLSX format Tab Separated format
25 DIDEO Drug Interaction and Evidence Ontology L Excel XLSX format Tab Separated format
26 DOID Human Disease Ontology F Excel XLSX format Tab Separated format
27 DRON The Drug Ontology L Excel XLSX format Tab Separated format
28 DUO The Data Use Ontology L Excel XLSX format Tab Separated format
29 ECO Evidence ontology L Excel XLSX format Tab Separated format
30 EDAM EMBRACE Data and Methods N Excel XLSX format Tab Separated format
31 EFO Experimental Factor Ontology N Excel XLSX format Tab Separated format
32 EHDA Human developmental anatomy, timed version N Excel XLSX format Tab Separated format
33 EHDAA Human developmental anatomy, abstract version N Excel XLSX format Tab Separated format
34 EHDAA2 Human developmental anatomy, abstract L Excel XLSX format Tab Separated format
35 EMAP Mouse gross anatomy and development, timed L Excel XLSX format Tab Separated format
36 EMAPA Mouse gross anatomy and development, timed L Excel XLSX format Tab Separated format
37 ENVO Environment Ontology L Excel XLSX format Tab Separated format
38 EO Plant Environment Ontology L Excel XLSX format Tab Separated format
39 ERO eagle-i resource ontology L Excel XLSX format Tab Separated format
40 FAO Fungal gross anatomy L Excel XLSX format Tab Separated format
41 FBBI Biological imaging methods L Excel XLSX format Tab Separated format
42 FBBT Drosophila gross anatomy L Excel XLSX format Tab Separated format
43 FBCV FlyBase Controlled Vocabulary L Excel XLSX format Tab Separated format
44 FBdv Drosophila development L Excel XLSX format Tab Separated format
45 FBsp Fly taxonomy N Excel XLSX format Tab Separated format
46 FLOPO Flora Phenotype Ontology L Excel XLSX format Tab Separated format
47 FMA Foundational Model of Anatomy (subset) L Excel XLSX format Tab Separated format
48 FOODON FOODON L Excel XLSX format Tab Separated format
49 FYPO Fission Yeast Phenotype Ontology L Excel XLSX format Tab Separated format
50 GAZ Gazetteer L Excel XLSX format Tab Separated format
51 GENEPIO Genomic Epidemiology Ontology L Excel XLSX format Tab Separated format
52 GENO Genotype Ontology L Excel XLSX format Tab Separated format
53 GEO Geographical Entity Ontology L Excel XLSX format Tab Separated format
54 GO Gene Ontology F Excel XLSX format Tab Separated format
55 HAO Hymenoptera Anatomy Ontology L Excel XLSX format Tab Separated format
56 HOM Homology Ontology L Excel XLSX format Tab Separated format
57 HP human phenotype ontology L Excel XLSX format Tab Separated format
58 HSAPDV Human Developmental Stages L Excel XLSX format Tab Separated format
59 IAO Information Artifact Ontology L Excel XLSX format Tab Separated format
60 IAO-Onto-Meta IAO Ontology Metadata N Excel XLSX format Tab Separated format
61 ICO Informed Consent Ontology L Excel XLSX format Tab Separated format
62 IDO Infectious disease L Excel XLSX format Tab Separated format
63 INO Interaction Network Ontology N Excel XLSX format Tab Separated format
64 KISAO Kinetic Simulation Algorithm Ontology L Excel XLSX format Tab Separated format
65 LINCS-CLOview CLO LINCS view N Excel XLSX format Tab Separated format
66 MA Mouse adult gross anatomy L Excel XLSX format Tab Separated format
67 MAMO Mathematical modeling ontology L Excel XLSX format Tab Separated format
68 MAT Minimal anatomical terminology N Excel XLSX format Tab Separated format
69 MF Mental Functioning Ontology L Excel XLSX format Tab Separated format
70 MFOEM Emotion Ontology L Excel XLSX format Tab Separated format
71 MI Molecular interactions L Excel XLSX format Tab Separated format
72 MMO Measurement method ontology L Excel XLSX format Tab Separated format
73 MMUSDV Mouse Developmental Stages L Excel XLSX format Tab Separated format
74 MO Microarray experimental conditions N Excel XLSX format Tab Separated format
75 MOD Protein modification L Excel XLSX format Tab Separated format
76 MOP Molecular Process Ontology L Excel XLSX format Tab Separated format
77 MP Mammalian phenotype L Excel XLSX format Tab Separated format
78 MPATH Mouse pathology N Excel XLSX format Tab Separated format
79 MRO MHC Restriction Ontology L Excel XLSX format Tab Separated format
80 MS Mass spectrometry ontology L Excel XLSX format Tab Separated format
81 NBO Neuro Behavior Ontology L Excel XLSX format Tab Separated format
82 NCBITaxon NCBI organismal classification L Excel XLSX format Tab Separated format
83 NCIT NCI Thesaurus N Excel XLSX format Tab Separated format
84 NCRO Non-Coding RNA Ontology L Excel XLSX format Tab Separated format
85 NDF-RT National Drug File Reference Terminology N Excel XLSX format Tab Separated format
86 NIF_Cell NIF Cell N Excel XLSX format Tab Separated format
87 NIF_Dysfunction NIF Dysfunction N Excel XLSX format Tab Separated format
88 NIF_GrossAnatomy NIF Gross Anatomy N Excel XLSX format Tab Separated format
89 NMR NMR-instrument specific component of metabolomics investigations N Excel XLSX format Tab Separated format
90 OAE Ontology of Adverse Events L Excel XLSX format Tab Separated format
91 OARCS Ontology of Arthropod Circulatory Systems L Excel XLSX format Tab Separated format
92 OBA Ontology of Biological Attributes L Excel XLSX format Tab Separated format
93 OBCS Ontology of Biological and Clinical Statistics L Excel XLSX format Tab Separated format
94 OBI Ontology for Biomedical Investigations F Excel XLSX format Tab Separated format
95 OBI-NIAID-GSC-BRC-view OBI NIAID-GSC-BRC view N Excel XLSX format Tab Separated format
96 OBIB Ontology for Biobanking L Excel XLSX format Tab Separated format
97 OBIws OBI web service, development version N Excel XLSX format Tab Separated format
98 OCVDAE Ontology of Cardiovascular Drug Adverse Events N Excel XLSX format Tab Separated format
99 ODNAE Ontologyof Drug Neuropathy Adverse Events N Excel XLSX format Tab Separated format
100 OGG The Ontology of Genes and Genomes L Excel XLSX format Tab Separated format
101 OGG-At Ontology of Genes and Genomes - Arabidopsis thaliana N Excel XLSX format Tab Separated format
102 OGG-Bru Ontology of Genes and Genomes - Brucella N Excel XLSX format Tab Separated format
103 OGG-Ce Ontology of Genes and Genomes - Caenorhabditis elegans N Excel XLSX format Tab Separated format
104 OGG-Dm Ontology of Genes and Genomes - Fruit Fly N Excel XLSX format Tab Separated format
105 OGG-Dr Ontology of Genes and Genomes - Zebrafish N Excel XLSX format Tab Separated format
106 OGG-Pf Ontology of Genes and Genomes - Plasmodium falciparum N Excel XLSX format Tab Separated format
107 OGG-Sc Ontology of Genes and Genomes - Yeast N Excel XLSX format Tab Separated format
108 OHD The Oral Health and Disease Ontology L Excel XLSX format Tab Separated format
109 OLATDV Medaka Developmental Stages L Excel XLSX format Tab Separated format
110 OMIABIS Ontologized MIABIS L Excel XLSX format Tab Separated format
111 OMP Ontology of Microbial Phenotypes L Excel XLSX format Tab Separated format
112 OMRSE Ontology of Medically Related Social Entities L Excel XLSX format Tab Separated format
113 ONTONEO Obstetric and Neonatal Ontology L Excel XLSX format Tab Separated format
114 OOSTT Ontology of Organizational Structures of Trauma centers and Trauma systems L Excel XLSX format Tab Separated format
115 OPL Ontology for Parasite LifeCycle L Excel XLSX format Tab Separated format
116 OVAE Ontology of Vaccine Adverse Events L Excel XLSX format Tab Separated format
117 PATO Phenotypic quality F Excel XLSX format Tab Separated format
118 PCO Population and Community Ontology L Excel XLSX format Tab Separated format
119 PDRO The Prescription of Drugs Ontology L Excel XLSX format Tab Separated format
120 PDUMDV Platynereis Developmental Stages L Excel XLSX format Tab Separated format
121 PLANA planaria-ontology L Excel XLSX format Tab Separated format
122 PNO Proper Name Ontology N Excel XLSX format Tab Separated format
123 PO Plant Ontology F Excel XLSX format Tab Separated format
124 PORO Porifera Ontology L Excel XLSX format Tab Separated format
125 PPO Plant Phenology Ontology L Excel XLSX format Tab Separated format
126 PR PRotein Ontology (PRO) F Excel XLSX format Tab Separated format
127 ProPreO Proteomics data and process provenance N Excel XLSX format Tab Separated format
128 PW Pathway ontology L Excel XLSX format Tab Separated format
129 REX Physico-chemical process L Excel XLSX format Tab Separated format
130 RO Relations Ontology L Excel XLSX format Tab Separated format
131 RS Rat Strain Ontology L Excel XLSX format Tab Separated format
132 RXNO Name Reaction Ontology L Excel XLSX format Tab Separated format
133 SAO Subcellular anatomy ontology N Excel XLSX format Tab Separated format
134 SIBO Social Insect Behavior Ontology L Excel XLSX format Tab Separated format
135 SIO Semanticscience Integrated Ontology N Excel XLSX format Tab Separated format
136 SO Sequence types and features L Excel XLSX format Tab Separated format
137 SPD Spider Ontology L Excel XLSX format Tab Separated format
138 STATO The Statistical Methods Ontology L Excel XLSX format Tab Separated format
139 SWO Software ontology L Excel XLSX format Tab Separated format
140 TAO Teleost Anatomy Ontology N Excel XLSX format Tab Separated format
141 TAXRANK Taxonomic rank vocabulary L Excel XLSX format Tab Separated format
142 TO Plant Trait Ontology L Excel XLSX format Tab Separated format
143 TTO Teleost taxonomy L Excel XLSX format Tab Separated format
144 UBERON Uberon multi-species anatomy ontology L Excel XLSX format Tab Separated format
145 UO Units of measurement L Excel XLSX format Tab Separated format
146 VariO Variation Ontology L Excel XLSX format Tab Separated format
147 VHOG verteberate Homologous Organ Groups N Excel XLSX format Tab Separated format
148 VIVO-ISF VIVO-ISF N Excel XLSX format Tab Separated format
149 VO Vaccine Ontology L Excel XLSX format Tab Separated format
150 VT Vertebrate trait L Excel XLSX format Tab Separated format
151 VTO Vertebrate Taxonomy Ontology L Excel XLSX format Tab Separated format
152 WBbt C. elegans gross anatomy L Excel XLSX format Tab Separated format
153 WBLS C. elegans development L Excel XLSX format Tab Separated format
154 WBPhenotype C. elegans phenotype L Excel XLSX format Tab Separated format
155 XAO Xenopus anatomy and development F Excel XLSX format Tab Separated format
156 XCO Experimental condition ontology L Excel XLSX format Tab Separated format
157 YPO Yeast phenotypes N Excel XLSX format Tab Separated format
158 ZECO Zebrafish Experimental Conditions Ontology L Excel XLSX format Tab Separated format
159 ZFA Zebrafish anatomy and development F Excel XLSX format Tab Separated format
160 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.