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http://purl.bioontology.org/ontology/MIXS

Ontology providing an RDF representation of the MIxS (Minimal Information about any Sequence) family of checklists.

Proper citation: Minimal Information about any Sequence Ontology (RRID:SCR_010364) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/NIFDYS

Ontology that contains the former BIRNLex-Disease, version 1.3.2. -- The BIRN Project lexicon provided entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It was built using the organizational framework provided by the foundational Basic Formal Ontology (BFO). It used an abstract biomedical layer on top of that - OBO-UBO which was constructed as a proposal to the OBO Foundry. This was meant to support creating a sharable view of core biomedical objects such as biomaterial_entity, and organismal_entity that all biomedical ontologies are likely to need and want to use with the same intended meaning. The BIRNLex biomaterial entities have already been factored to separately maintained ontology - BIRNLexBiomaterialEntity.owl which this BIRNLex-Main.owl file imports. The Ontology of Biomedical Investigation (OBI) is also imported and forms the foundation for the formal description of all experiment-related artifacts. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.

Proper citation: NIF Dysfunction Ontlogy (RRID:SCR_010365) Copy   

•   Source: SciCrunch Registry

http://uberon.org

An integrated cross-species anatomy ontology representing a variety of entities classified according to traditional anatomical criteria such as structure, function and developmental lineage. The ontology includes comprehensive relationships to taxon-specific anatomical ontologies, allowing integration of functional, phenotype and expression data. Uberon consists of over 10000 classes (March 2014) representing structures that are shared across a variety of metazoans. The majority of these classes are chordate specific, and there is large bias towards model organisms and human.

Proper citation: UBERON (RRID:SCR_010668) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ADW

An ontology for animal life history and natural history characteristics suitable for populations and higher taxonomic entities.

Proper citation: Animal Natural History and Life History Ontology (RRID:SCR_010292) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/COSTART

Ontology for coding, filing, and retrieving post-marketing adverse drug and biologic experience reports. It is organized in body system and pathophysiology hierarchies, as well as a separate fetal/neonatal category of less than 20 terms. COSTART has been superseded by the Medical Dictionary for Regulatory Activities (MedDRA) Terminology. For more information about MedDRA in the Metathesaurus, see the MedDRA source synopsis. COSTART was last updated in the Metathesaurus in 1999.

Proper citation: Coding Symbols for a Thesaurus of Adverse Reaction Terms (RRID:SCR_010294) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/NCBITAXON

Ontology that is an automatic translation of the NCBI taxonomy (a taxonomic classification of living organisms and associated artifacts) database into obo/owl.

Proper citation: NCBITaxon (RRID:SCR_000479) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/HC

An ontology for courtship behavior of the spider Habronattus californicus. A demonstration of ontology construction as a general technique for coding ethograms and other descriptions of behavior into machine understandable forms.

Proper citation: Habronattus Courtship Ontology (RRID:SCR_010334) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FHHO

Ontology that facilitates representing the family health histories of persons related by biological and/or social family relationships (e.g. step, adoptive) who share genetic, behavioral, and/or environmental risk factors for disease. SWRL rules are included to compute 3 generations of biological relationships based on parentage and family history findings based on personal health findings.

Proper citation: Family Health History Ontology (RRID:SCR_010068) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/DCO

Ontology that is a schema for information brokering and knowledge management in the complex field of rare diseases. On the one hand, the Dispedia schema uses semantic technologies to describe patients affected by rare diseases, and on the other hand, to record expertise concerning these particular diseases in machine-processable form. In addition to the differentiated attribution of facts to the individual need for information, Dispedia enables information brokering which adjusts to the type of recipient, its character as well as its personal attitude. The schema was initially geared to an exemplified disease, Amyotrophe Lateralsclerose (ALS).

Proper citation: Dispedia Core Ontology (RRID:SCR_010309) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/SWEET

A mature foundational ontology developed at the NASA Jet Propulsion Laboratory, currently containing over 6000 concepts organized in 200 ontologies represented in OWL, whose top level concepts include Representation (math, space, science, time, data), Realm (Ocean, Land Surface, Terrestrial Hydroshere, Atmosphere, etc.), Phenomena (macro-scale ecological and physical), Processes (micro-scale physical, biological, chemical, and mathematical), Human Activities (Decision, Commerce, Jurisdiction, Environmental, Research). SWEET is now officially under the governance of the ESIP foundation.

Proper citation: Semantic Web for Earth and Environment Technology Ontology (RRID:SCR_010426) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/CHEMBIO

Ontology for Systems Chemical Biology and Chemogenomics

Proper citation: Systems Chemical Biology and Chemogenomics Ontology (RRID:SCR_003928) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FB-DV

A structured controlled vocabulary of the development of Drosophila melanogaster.

Proper citation: Drosophila Development Ontology (RRID:SCR_010310) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FB-BT

A structured controlled vocabulary of the anatomy of Drosophila melanogaster.

Proper citation: Drosophila Gross Anatomy Ontology (RRID:SCR_010311) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FIX

Two ontologies: methods and properties (but not objects, which are subject of the chemical ontology). The methods are applied to study the properties.

Proper citation: Physico-Chemical Methods and Properties (RRID:SCR_010407) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/SSO

Ontology that encodes agreement among experts about how Emergency Department (ED) chief complaints are grouped into syndromes of public health importance (consensus definitions).

Proper citation: Syndromic Surveillance Ontology (RRID:SCR_010409) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ORDO

Ontology to provide a structured vocabulary for rare diseases capturing relationships between diseases, genes and other relevant features which will form a useful resource for the computational analysis of rare diseases. It derived from the Orphanet database (http://www.orpha.net) , a multilingual database dedicated to rare diseases populated from literature and validated by international experts. It integrates a nosology (classification of rare diseases), relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, SNOMED CT, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) or classifications (ICD10). The ontology will be maintained by Orphanet and further populated with new data. Orphanet classifications can be browsed in the OLS view. The Orphanet Rare Disease Ontology is updated monthly and follows the OBO guidelines on deprecation of terms. It constitutes the official ontology of rare diseases produced and maintained by Orphanet (INSERM, US14).

Proper citation: Orphanet Rare Disease Ontology (RRID:SCR_010402) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/PEO

Ontology that models provenance metadata associated with experiment protocols used in parasite research. The PEO extends the upper-level Provenir ontology (http://knoesis.wright.edu/provenir/provenir.owl) to represent parasite domain-specific provenance terms. The PEO (v 1.0) includes Proteome, Microarray, Gene Knockout, and Strain Creation experiment terms along with other terms that are used in pathway.

Proper citation: Parasite Experiment Ontology (RRID:SCR_010403) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/PHARE

Ontology that proposes concepts and roles to represent relationships of pharmacogenomics interest.

Proper citation: Pharmacogenomic Relationships Ontology (RRID:SCR_010406) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/DDI

Ontology for the description of drug discovery investigations. DDI aims to follow to the OBO (Open Biomedical Ontologies) Foundry principles, uses relations laid down in the OBO Relation Ontology, and be compliant with Ontology for biomedical investigations (OBI).

Proper citation: Ontology for Drug Discovery Investigations (RRID:SCR_010383) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/OGSF

Application ontology to model / represent the notion of genetic susceptibility to a specific disease or an adverse event or a pathological biological process. It is developed using BFO2.0''s framwork. The ontology is under the domain of genetic epidemiology.

Proper citation: Ontology for Genetic Susceptibility Factor (RRID:SCR_010386) Copy   

•   Source: SciCrunch Registry