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

Ontologies designed as a set of interoperable ontologies that will together provide coverage of the infectious disease domain. At the core of the set is a general Infectious Disease Ontology (IDO-Core) of entities relevant to both biomedical and clinical aspects of most infectious diseases. Sub-domain specific extensions of IDO-Core complete the set providing ontology coverage of entities relevant to specific pathogens or diseases. Please note: The ontology metrics displayed by BioPortal do not distinguish IDO-developed terms from terms imported from other ontologies.

Proper citation: Infectious Disease Ontology (RRID:SCR_010345) Copy   

•   Source: SciCrunch Registry

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

A system of classifications to enable systematic description of how injuries occur. It is designed especially to assist injury prevention. It was originally designed for use in settings in which information is recorded in a way that allows statistical reporting--for example, injury surveillance based on collection of information about cases attending a sample of hospital emergency departments. It has also been found useful for other purposes. For example, it has been used as a reference classification during revision of another classification, to record risk-factor exposure of children in a cohort study, as the basis for special-purpose classifications and in a growing number of other ways.

Proper citation: International Classification of External Causes of Injuries (RRID:SCR_010348) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ICD10CM

Ontology of the International Classification of Diseases, 10th Edition, Clinical Modification, 2011_01

Proper citation: International Classification of Diseases Version 10 - Clinical Modification (RRID:SCR_010350) Copy   

•   Source: SciCrunch Registry

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

THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 23, 2014. Description not available.

Proper citation: Maize Gross Anatomy Ontology (RRID:SCR_010353) Copy   

•   Source: SciCrunch Registry

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

Ontology that contains terms necessary for describing and categorizing concepts related to Major Histocompatibility Complex, in general, for a number of model species, and also for humans.

Proper citation: Major Histocompatibility Complex Ontology (RRID:SCR_010354) Copy   

•   Source: SciCrunch Registry

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

Structured controlled vocabulary for describing meta information of microbial calture collection maintained in biological research centers

Proper citation: Microbial Culture Collection Vocabulary (RRID:SCR_010361) Copy   

•   Source: SciCrunch Registry

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/MAMO

Ontology that is a classification of the types of mathematical models used mostly in the life sciences, their variables, relationships and other relevant features.

Proper citation: Mathematical Modelling Ontology (RRID:SCR_000910) Copy   

•   Source: SciCrunch Registry

http://www.ncbcs.org/biositemaps/

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 27,2023. A controlled terminology of resources, which is used to improve the sensitivity and specificity of web searches. It includes ''resource_type'', ''area of research'', and ''activity''. It is under development by a number of NIH-funded researchers who have a combined interest in classification of biomedical resources. The biositemaps site is no longer available but the biomedical resource ontology is still available via bioportal Biomedical Resource Ontology (BRO).

Proper citation: Biomedical Resource Ontology (RRID:SCR_004443) Copy   

•   Source: SciCrunch Registry

http://hymao.org

A structured controlled vocabulary of the anatomy of the Hymenoptera (bees, wasps, sawflies and ants)

Proper citation: Hymenoptera Anatomy Ontology (RRID:SCR_003340) Copy   

•   Source: SciCrunch Registry

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

Ontology for cell types from NIFSTD

Proper citation: NIF Cell Ontology (RRID:SCR_003977) Copy   

•   Source: SciCrunch Registry

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

A structured controlled vocabulary for the annotation of mass spectrometry experiments.

Proper citation: Mass Spectrometry Ontology (RRID:SCR_003579) Copy   

•   Source: SciCrunch Registry

http://code.google.com/p/opl-ontology/

A reference ontology that models the life cycle stage details of various parasites, including Trypanosoma sp., Leishmania major, and Plasmodium sp., etc. In addition to life cycle stages, the ontology also models necessary contextual details, such as host information, vector information, and anatomical location. OPL is based on the Basic Formal Ontology (BFO) and follows the rules set by the OBO Foundry consortium.

Proper citation: Ontology for Parasite LifeCycle (RRID:SCR_003427) Copy   

•   Source: SciCrunch Registry

https://code.google.com/p/ontology-for-genetic-interval/

An ontology that formalized the genomic element by defining an upper class genetic interval using BFO as its framework. The definition of genetic interval is the spatial continuous physical entity which contains ordered genomic sets (DNA, RNA, Allele, Marker,etc.) between and including two points (Nucleic_Acid_Base_Residue) on a chromosome or RNA molecule which must have a liner primary sequence structure.

Proper citation: Ontology for Genetic Interval (RRID:SCR_003423) Copy   

•   Source: SciCrunch Registry

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

Ontology that provides a reference for describing an exercise in terms of functional movements, engaged musculoskeletal system parts, related equipment or monitoring devices, intended health outcomes, as well as target ailments for which the exercise might be employed as a treatment or preventative measure.

Proper citation: Ontology of Physical Exercises (RRID:SCR_003836) Copy   

•   Source: SciCrunch Registry

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

An application ontology for the domain of gene expression regulation. The ontology integrates fragments of GO and MI with data from GOA, IntAct, UniProt, NCBI, KEGG and orthology relations.

Proper citation: Regulation of Gene Expression Ontolology (RRID:SCR_006124) Copy   

•   Source: SciCrunch Registry

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

Ontology for livestock reproductive traits and phenotypes

Proper citation: Reproductive Trait and Phenotype Ontology (RRID:SCR_006245) Copy   

•   Source: SciCrunch Registry

http://www.ebi.ac.uk/sbo/

A set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in particular in computational modeling. The ontology consists of seven orthogonal vocabularies defining: the roles of reaction participants (eg. substrate), quantitative parameters (eg. Michaelis constant), a precise classification of mathematical expressions that describe the system (eg. mass action rate law), the modeling framework used (eg. logical framework), and a branch each to describe entity (eg. macromolecule) and interaction (eg. process) types, and a branch to define the different types of metadata that may be present within a model. SBO terms can be used to introduce a layer of semantic information into the standard description of a model, or to annotate the results of biochemical experiments in order to facilitate their efficient reuse. SBO is an Open Biomedical Ontologies (OBO) candidate ontology, and is free for use. A programmatic access to the content of the Systems Biology Ontology is provided by Web Services.

Proper citation: SBO (RRID:SCR_006753) Copy   

•   Source: SciCrunch Registry