Personal tools
You are here: Home Resources Ontologies, markup languages, controlled vocabularies, and thesauri

Ontologies, markup languages, controlled vocabularies, and thesauri

by Cao last modified Nov 07, 2012 11:05 AM

Resources for domain ontologies and ontology organizations, markup languages, and controlled vocabularies and thesauri

Controlled Vocabularies and Thesauri

AGI GeoRef Thesaurus

American Geosciences Institute (AGI) GeoRef Thesaurus

EPA Glossaries and Keywords

United States Environmental Protection Agency glossaries and keyword lists


European Environment Information and Observation Network GEneral Multilingual Environmental Thesaurus

LTER Controlled Vocabulary

The Long Term Ecological Research Network Controlled Vocabulary


NASA Global Change Master Directory

Metadata Languages


Ecological Metadata Language


Geoscience Markup Language


Infrastructure for Spatial Information in the European Community


NetCDF climate forecasting metadata

Markup language for sharing data in a manner compatible with the NetCDF API.  Basic concepts include standard units, coordinates, time and climatalogical statistics.  Contains a list of 2427 standard names with canonical units and definitions.

Term relationships are not axiomatized in a formal logical model.

Foundational Ontologies 

OBO Foundry


Basic Formal Ontology


A Descriptive Ontology for Linguistic and Cognitive Engineering


SemanticScience Integrated Ontology

Domain Ontologies

SWEET Ontologies

Earth and Environmental sciences "middle-level ontology" containing 4417 classes, 565 object properties, and 41 data type properties in 200+ ontologies.


Hydrologic Ontology for Discovery (CUAHSI-HIS)


Environment Ontology


PATO has three phenotype ontologies:  
(1) PATO: Phenotypic qualities that form the building blocks of phenotype descriptions; (2) Mammalian Phenotype; (3) Plant Trait. 
These three ontologies can be downloaded from PATO Wiki(in XML format), or from OBO Foundry (in obo format: TO (plant_trait.obo) , MP (mammalian_phenotype.obo), PATO(quality.obo)). 
Groups that are using PATO:
  • Phenoscape:
  • ZFIN The Zebrafish Model Organism Database:
  • J. Sprague, D. Clements, T. Conlin, P. Edwards, K. Frazer, K. Schaper, E. Segerdell, P. Song, B. Sprunger, and M. Westerfield. The zebrafish information network (ZFIN): the zebrafish model organism database. Nucleic Acids Res., 31(1):241–243, 2003. (link)
  • FlyBase Consortium: The flybase database of the drosophila genome projects and community literature. Nucleic Acids Res., 30(1):106–108, 2002. (Link)

VSTO Ontology

Virtual Solar-Terrestrial Observatory ontology

Ontology for solar, solar-terrestrial, and space physics concepts consisting of 302 classes, 40 object properties, and 35 data properties.



Document Actions