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http://ccdb.ucsd.edu/SAO

Ontology that describes structures from the dimensional range encompassing cellular and subcellular structure, supracellular domains, and macromolecules. It is built according to ontology development best practices (re-use of existing ontologies; formal definitions of terms; use of foundational ontologies). It describes the parts of neurons and glia and how these parts come together to define supracellular structures such as synapses and neuropil. Molecular specializations of each compartment and cell type are identified. The SAO was designed with the goal of providing a means to annotate cellular and subcellular data obtained from light and electron microscopy, including assigning macromolecules to their appropriate subcellular domains. The SAO thus provides a bridge between ontologies that describe molecular species and those concerned with more gross anatomical scales. Because it is intended to integrate into ontological efforts at these other scales, particular care was taken to construct the ontology in a way that supports such integration.

Proper citation: Subcellular Anatomy Ontology (RRID:SCR_003486) Copy   

•   Source: SciCrunch Registry

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

An ontology that includes both extinct and extant vertebrates, aiming to provide one comprehensive hierarchy. The hierarchy backbone for extant taxa is based on the NCBI taxonomy. Since the NCBI taxonomy only includes species associated with archived genetic data, to complement this, they also incorporate taxonomic information across the vertebrates from the Paleobiology Database (PaleoDB). The Teleost Taxonomy Ontology (TTO) and AmphibiaWeb (AWeb) are incorporated to provide a more authoritative hierarchy and a richer set of names for specific taxonomic groups.

Proper citation: Vertebrate Taxonomy Ontology (RRID:SCR_003518) Copy   

•   Source: SciCrunch Registry

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

Ontology network about Patient Safety Incident. This work has been carried out by the Ontological Engineering Group, using sources from the University of Saint Etienne and the Australian Patient Safety Foundation.

Proper citation: International Classification for Patient Safety (RRID:SCR_003553) Copy   

•   Source: SciCrunch Registry

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

Ontology of master drug data base, 2009_08_05

Proper citation: Master Drug Data Base Clinical Drugs (RRID:SCR_003668) Copy   

•   Source: SciCrunch Registry

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

A structured controlled vocabulary of the anatomy and development of the Japanese medaka fish, Oryzias latipes.

Proper citation: Medaka Fish Anatomy and Development Ontology (RRID:SCR_003719) Copy   

•   Source: SciCrunch Registry

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

Metathesaurus Version of Minimal Standard Terminology Digestive Endoscopy. Bethesda, MD: National Library of Medicine, 2001.

Proper citation: Minimal Standard Terminology of Digestive Endoscopy (RRID:SCR_003785) Copy   

•   Source: SciCrunch Registry

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

Ontology of systematized nomenclature of human and veterinary medicine: SNOMED International. Cote, Roger A., editor. Northfield (IL): College of American Pathologists; Schaumburg (IL): American Veterinary Medical Association, Version 3.5, 1998.

Proper citation: Systematized Nomenclature of Medicine - International Version (RRID:SCR_003849) Copy   

•   Source: SciCrunch Registry

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

Ontology that is a subset of GO directed for neurological and immunological systems. It was created by clipping those GO terms that are not associated to any gene in human, rat and mouse, and by clipping terms not found to be relevant to the neural and/or immune domains.

Proper citation: Neural-Immune Gene Ontology (RRID:SCR_004120) Copy   

•   Source: SciCrunch Registry

https://genenames.org

Only worldwide authority that provides standardized nomenclature, i.e. gene names and symbols (short form abbreviations), for all known human genes, and stores all approved symbols in the HGNC database. Approved human gene nomenclature. Database of gene symbols and names. Manually curated genes into groups based on shared characteristics such as homology, function or phenotype. Data for protein-coding genes, pseudogenes and non-coding RNAs.

Proper citation: HGNC (RRID:SCR_002827) Copy   

•   Source: SciCrunch Registry

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

Ontology of the international classification for nursing practice.

Proper citation: International Classification for Nursing Practice (RRID:SCR_003099) Copy   

•   Source: SciCrunch Registry

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

An ontology for spider comparative biology including anatomical parts (e.g. leg, claw), behavior (e.g. courtship, combing) and products (i.g. silk, web, borrow).

Proper citation: Spider Ontology (RRID:SCR_003117) Copy   

•   Source: SciCrunch Registry

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

Ontology to enable curation of chemical-gene and chemical-protein interactions for the Comparative Toxicogenomics Database (CTD), a freely available resource that aims to promote understanding and novel hypothesis development about the effects of the environment on human health.

Proper citation: Interaction Ontology (RRID:SCR_003055) Copy   

•   Source: SciCrunch Registry

http://code.google.com/p/mental-functioning-ontology/

An ontology for mental functioning, including mental processes such as cognition and traits such as intelligence, and related diseases and disorders. It is developed in the context of the Ontology for General Medical Science and the Basic Formal Ontology. The project is being developed in collaboration between the University of Geneva, Switzerland, and the University at Buffalo, USA. The project is being developed with full involvement of all relevant communities, following best practices laid out by the OBO Foundry. Efforts are currently underway to align with related projects including the Behaviour Ontology, the Cognitive Atlas, the Cognitive Paradigm Ontology and the Neural Electro Magnetic Ontologies.

Proper citation: Mental Functioning Ontology (RRID:SCR_003245) Copy   

•   Source: SciCrunch Registry

https://code.google.com/p/emotion-ontology/

An ontology of affective phenomena such as emotions, moods, appraisals and subjective feelings, designed to support interdisciplinary research by providing unified annotations. The ontology is a domain specialization of the broader Mental Functioning Ontology.

Proper citation: Emotion Ontology (RRID:SCR_003272) Copy   

•   Source: SciCrunch Registry

http://sourceforge.net/projects/vtontology/

A controlled vocabulary for the description of traits (measurable or observable characteristics) pertaining to the morphology, physiology, or development of vertebrate organisms.

Proper citation: Vertebrate Trait Ontology (RRID:SCR_003214) Copy   

•   Source: SciCrunch Registry

http://biomodels.net/kisao/

An ontology that classifies algorithms available for the simulation of models in biology, their characteristics and the parameters required for their use.

Proper citation: Kinetic Simulation Algorithm Ontology (RRID:SCR_003361) Copy   

•   Source: SciCrunch Registry

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

An ontology designed to represent the conditions under which physiological and morphological measurements are made both in the clinic and in studies involving humans or model organisms.

Proper citation: Experimental Conditions Ontology (RRID:SCR_003306) Copy   

•   Source: SciCrunch Registry

http://www.bioontology.org

Organization that provides biomedical researchers with online tools and a web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of the work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.

Proper citation: National Center for Biomedical Ontology (RRID:SCR_003304) Copy   

•   Source: SciCrunch Registry

https://bioportal.bioontology.org/ontologies/NEMO/?p=summary

Ontology that describes classes of event-related brain potentials (ERP) and their properties, including spatial, temporal, and functional (cognitive / behavioral) attributes, and data-level attributes (acquisition and analysis parameters). Its aim is to support data sharing, logic-based queries and mapping/integration of patterns across data from different labs, experiment paradigms, and modalities (EEG/MEG).

Proper citation: NEMO Ontology (RRID:SCR_003386) Copy   

•   Source: SciCrunch Registry

https://github.com/egonw/semanticchemistry

An ontology that aims to establish a standard in representing chemical information including chemical structure and the ability to richly describe chemical properties, whether intrinsic or computed. It includes terms for the descriptors commonly used in cheminformatics software applications and the algorithms which generate them.

Proper citation: Chemical Information Ontology (RRID:SCR_003290) Copy   

•   Source: SciCrunch Registry