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http://purl.bioontology.org/ontology/ONTODM-KDD

Ontology for representing data mining investigations. Its goal is to allow the representation of knowledge discovery processes and be general enough to represent the data mining investigations. The ontology is based on the CRISP-DM process methodology.

Proper citation: Ontology of Data Mining Investigations (RRID:SCR_010394) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/TM-MER

Ontology of the meridian value set used in the International Classification of Traditional Medicine.

Proper citation: Traditional Medicine Meridian Value Sets (RRID:SCR_010436) Copy   

•   Source: SciCrunch Registry

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

Ontology of National Drug File - Reference Terminology Public Inferred Edition, 2008_03_11

Proper citation: National Drug File - Reference Terminology (RRID:SCR_010372) Copy   

•   Source: SciCrunch Registry

http://code.google.com/p/eagle-i/

Ontology that models research resources such as instruments, protocols, reagents, animal models and biospecimens. It has been developed in the context of the eagle-i project (http://eagle-i.net/) and consists of over 3451 classes of which over 1200 were created within the ERO namespace, while the rest come from existent ontologies such as the Ontology for Biomedical Investigation (OBI), the uber-anatomy ontology (Uberon), VIVO, the Ontology for Clinical Research (OCRe), the Sequence Ontology (SO), the Software Ontology (SWO) and we include terms from the NCBI Taxonomy as well. The main ontology can be browsed in OntoBee. All purls resolve to OntoBee.

Proper citation: eagle-i research resource ontology (RRID:SCR_008784) Copy   

•   Source: SciCrunch Registry

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

Biochemical Substructure Ontology

Proper citation: Biochemical Substructure Ontology (RRID:SCR_010185) Copy   

•   Source: SciCrunch Registry

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

A bilingual (English-French) domain ontology for modeling knowledge about Alzheimer's Disease and Related Syndromes.

Proper citation: Bilingual Ontology of Alzheimer (RRID:SCR_010149) Copy   

•   Source: SciCrunch Registry

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

A structured controlled vocabulary for the source of an enzyme. It comprises terms for tissues, cell lines, cell types and cell cultures from uni- and multicellular organisms.

Proper citation: BRENDA Tissue and Enzyme Source Ontology (RRID:SCR_010031) Copy   

•   Source: SciCrunch Registry

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

An open, public ontology representing relevant knowledge on Alzheimer's disease.

Proper citation: Alzheimer's disease ontology (RRID:SCR_010289) Copy   

•   Source: SciCrunch Registry

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

A structured controlled vocabulary for the anatomy of fungi.

Proper citation: Fungal Gross Anatomy Ontology (RRID:SCR_010322) Copy   

•   Source: SciCrunch Registry

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

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 abstract version of the human developmental anatomy ontology compresses all the tissues present over Carnegie stages 1-20 into a single hierarchy. The heart, for example, is present from Carnegie Stage 9 onwards and is thus represented by 12 EHDA IDs (one for each stage). In the abstract mouse, it has a single ID so that the abstract term given as just ''heart'' really means ''heart (CS 9-20)''. Timing details will be added to the abstract version of the ontology in a future release.

Proper citation: Human Developmental Anatomy Ontology abstract version 1 (RRID:SCR_010323) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/BAO-GPCR

Ontology (http://www.bioassayontology.org/bao_gpcr) that describes pharmacology, biochemistry and physiology of these important and therapeutically promising class of academic and pharmaceutical research targets. Incorporation and comparison of various small molecule screening data sets, such as those deposited in PubChem, ChEMBL, KEGG, PDSP, and/or IUPHAR databases, requires a formalized electronic organization system. In order to bridge the gap between the overflow of HTS data and the bottleneck of integrated analysis tools, herein, we provide the first comprehensive GPCR ontology. The development and utility of GPCR ontology was based on previously developed BioAssay Ontology (BAO). The GPCR ontology contains information about biochemical, pharmacological, and functional properties of individual GPCRs as well as GPCR-selective ligands inclusive of their HTS screening results and other records. This provides the first all-inclusive GPCR ontology with all available data to model the relationship between the GPCR binding sites and their physiologic and pharmacologic role in physiology via small molecule chemical structures. We developed this system using emerging semantic technologies, by leveraging existing and descriptive domain level ontologies.

Proper citation: G Protein-Coupled Receptor BioAssays Ontology (RRID:SCR_010324) Copy   

•   Source: SciCrunch Registry

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

A translation of the full Galen ontology (from the OpenGALEN project) into the OWL description logic.

Proper citation: Galen Ontology (RRID:SCR_010325) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/GO-EXT

An extension of the Gene Ontology.

Proper citation: Gene Ontology Extension (RRID:SCR_010327) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/GENE-CDS

Ontology to unify several functionalities in a single resource, being: * A knowledge base for clinical pharmacogenomics/pharmacogenetics that can be used for question-answering (e.g., which SNPs are associated with this drug?) * A rule base for clinical decision support (e.g., inferring that a patient with a specific set of SNPs requires a lowered dose of warfarin and generating a CDS message that can be viewed by clinicians) * A tool for checking data consistency (e.g., highlighting which allele definitions in PharmGKB are overlapping, or which clinical decision support rules are matching the same group of patients)

Proper citation: Genomic Clinical Decision Support Ontology (RRID:SCR_010331) Copy   

•   Source: SciCrunch Registry

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

Ontology that includes crop-specific trait ontologies for several economically important plants like rice, wheat, maize, potato, musa, chickpea and sorghum along with other important domains for crop research such as germplasm, passport, trait measurement scales, experimental design factors etc.

Proper citation: Crop Ontology (RRID:SCR_010299) Copy   

•   Source: SciCrunch Registry

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

Ontology to help integrate species concepts with species occurrences, gene sequences, images, references and geographical information. See also Taxonconcept.org

Proper citation: GeoSpecies Ontology (RRID:SCR_010332) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/AMINO-ACID

An ontology of amino acids and their properties. Inferred version.

Proper citation: Amino Acid Ontology (RRID:SCR_010290) Copy   

•   Source: SciCrunch Registry

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

Ontology for standardized health outcome and health determinant indicators as maintained by the CDC National Center for Health Statistics.

Proper citation: Health Indicator Ontology (RRID:SCR_010335) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/HL7

Ontology for the data types used in the creation of HL7 (Health Level Seven International) V3 specifications. This version is the first update to Normative RIM, Release 3. It is based on changes approved in Harmonization in November 2010. This release of the RIM is bound to HL7 Abstract Data Types Release 2. https://www.hl7.org/implement/standards/product_brief.cfm?product_id=264

Proper citation: Health Level Seven Reference Implementation Model Version 3 (RRID:SCR_010336) Copy   

•   Source: SciCrunch Registry

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

An Interaction Network Ontology (INO) extension for the domain of human interaction networks. It has currently incoporated Reactome reactions and pathways. Like INO, HINO aligns with BFO. HINO is developed by following the OBO Foundry principles.

Proper citation: Human Interaction Network Ontology (RRID:SCR_010339) Copy   

•   Source: SciCrunch Registry