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https://github.com/obophenotype/porifera-ontology
An ontology covering the anatomy of Porifera (sponges).
Proper citation: Porifera Ontology (RRID:SCR_000134) Copy
https://bioportal.bioontology.org/ontologies/PCL/
Collection of ontology of provisional cells determined by experimental methods.
Proper citation: Provisional Cell Ontology (RRID:SCR_018332) Copy
A structured controlled vocabulary of the anatomy of the Hymenoptera (bees, wasps, sawflies and ants)
Proper citation: Hymenoptera Anatomy Ontology (RRID:SCR_003340) Copy
http://purl.bioontology.org/ontology/NIFCELL
Ontology for cell types from NIFSTD
Proper citation: NIF Cell Ontology (RRID:SCR_003977) Copy
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
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
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
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
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
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
http://purl.bioontology.org/ontology/REPO
Ontology for livestock reproductive traits and phenotypes
Proper citation: Reproductive Trait and Phenotype Ontology (RRID:SCR_006245) Copy
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
http://purl.bioontology.org/ontology/SHR
Ontology for the description of student health records. Student health records are created for entering college students in order to provide better health services will be formed. This file contains various sections such as history of disease, family history of disease, public examinations and ... .
Proper citation: Student Health Record Ontology (RRID:SCR_005854) Copy
http://code.google.com/p/behavior-ontology
An ontology consisting of two main components, an ontology of behavioral processes and an ontology of behavioral phenotypes. The behavioral process branch of NBO contains a classification of behavior processes complementing and extending the GO process ontology. The behavior phenotype branch of NBO consists of a classification of both normal and abnormal behavioral characteristics of organisms. The prime application of NBO is to provide the vocabulary that is required to integrate behavior observations within and across species. It is currently being applied by several model organism communities as well as in the description of human behavior-related disease phenotypes. The main ontology is available in both the OBO Flatfile Format and the Web Ontology Language (OWL).
Proper citation: Neurobehavior Ontology (RRID:SCR_006201) Copy
http://purl.bioontology.org/ontology/EHDA
A structured controlled vocabulary of stage-specific anatomical structures of the human. It has been designed to mesh with the mouse anatomy and incorporates each Carnegie stage of development (CS1-20). The timed version of the human developmental anatomy ontology gives all the tissues present at each Carnegie Stage (CS) of human development (1-20) linked by a part-of rule. Each term is mentioned only once so that the embryo at each stage can be seen as the simple sum of its parts. Users should note that tissues that are symmetric (e.g. eyes, ears, limbs) are only mentioned once.
Proper citation: Human Developmental Anatomy Ontology timed version (RRID:SCR_010338) Copy
http://purl.bioontology.org/ontology/HUPSON
Ontology as a basis for shared semantics and interoperability of simulations, of models, of algorithms and of other resources in this domain. The ontology is based on the Basic Formal Ontology, and adheres to the MIREOT principles.
Proper citation: Human Physiology Simulation Ontology (RRID:SCR_010340) Copy
http://purl.bioontology.org/ontology/LOINC
Ontology of logical observation identifier names and codes (LOINC); Version 2.26; January 2, 2009
Proper citation: Logical Observation Identifier Names and Codes (RRID:SCR_010341) Copy
http://purl.bioontology.org/ontology/DCM
DICOM Controlled Terminology (PS3.16 2013 Annex D)
Proper citation: DICOM Controlled Terminology (RRID:SCR_010302) Copy
http://purl.bioontology.org/ontology/DIAGONT
A computational diagnostic ontology containing 91 elements, including classes and sub-classes, which are required to conduct SR-MA (Systematic Review - Meta Analysis) for diagnostic studies, that will assist in standardized reporting of diagnostic articles. They also report high percentage of agreement among five observers as a result of the inter-observer agreement that they conducted among them to tag 13 articles using the diagnostic ontology. Moreover, they extend their existing repository CERR-N (Center of Excellence in Research Reporting in Neurosurgery) to include diagnostic studies.
Proper citation: Diagnostic Ontology (RRID:SCR_010307) Copy
http://purl.bioontology.org/ontology/TMO
A high level patient-centric ontology for the pharmaceutical industry. The ontology should enable silos in discovery research, hypothesis management, experimental studies, compounds, formulation, drug development, market size, competitive data, population data, etc. to be brought together. This would enable scientists to answer new questions, and to answer existing scientific questions more quickly. This will help pharmaceutical companies to model patient-centric information, which is essential for the tailoring of drugs, and for early detection of compounds that may have sub-optimal safety profiles. The ontology should link to existing publicly available domain ontologies.
Proper citation: Translational Medicine Ontology (RRID:SCR_010439) Copy
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Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
