Web Ontology Language
How to cite this record FAIRsharing.org: OWL; Web Ontology Language; DOI: https://doi.org/10.25504/FAIRsharing.atygwy; Last edited: Jan. 8, 2019, 1:27 p.m.; Last accessed: Aug 21 2019 10:02 a.m.
Record updated: Nov. 28, 2016, 12:06 p.m. by The FAIRsharing Team.
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The UniProt Knowledgebase (UniProtKB) is the central hub for the collection of functional information on proteins, with accurate, consistent and rich annotation. In addition to capturing the core data mandatory for each UniProtKB entry (mainly, the amino acid sequence, protein name or description, taxonomic data and citation information), as much annotation information as possible is added. This includes widely accepted biological ontologies, classifications and cross-references, and clear indications of the quality of annotation in the form of evidence attribution of experimental and computational data. The UniProt Knowledgebase consists of two sections: a reviewed section containing manually-annotated records with information extracted from literature and curator-evaluated computational analysis (aka "UniProtKB/Swiss-Prot"), and an unreviewed section with computationally analyzed records that await full manual annotation (aka "UniProtKB/TrEMBL").
RegenBase is a knowledge base of SCI biology. RegenBase integrates curated literature-sourced facts and experimental details from publications, raw assay data profiling the effect of compounds on enzyme activity and cell growth, and structured SCI domain knowledge in the form of the first ontology for SCI, using Semantic Web representation languages and frameworks. RegenBase enables researchers to organize and interrogate experimental data generated by spinal cord injury (SCI) research, with the ultimate goal of translating SCI experimental findings in model organisms into human therapies.
BioPortal is a Web portal that provides access to a library of biomedical ontologies and terminologies developed in Web Ontology Language (OWL), Resource Description Framework (RDF)(S), Open Biological and Biomedical Ontologies (OBO) format, and Protégé frames and Rich Release Format. BioPortal has a service-oriented architecture; the NCBO Web services provide the functionality found in BioPortal and these Web services can be incorporated into other software applications to access and use ontology content. BioPortal groups ontologies by domain to ease finding relevant ontologies and allows users to browse, search and visualize the content of ontologies. BioPortal also provides value-added features like ontology recommendation, text annotation, ontology mapping, and a reference index to resources like PubMed.
Virtual Fly Brain
VFB is an interactive tool for neurobiologists to explore the detailed neuroanatomy, neuron connectivity and gene expression of Drosophila melanogaster. Our goal is to make it easier for researchers to find relevant anatomical information and reagents. We integrate the neuroanatomical and expression data from the published literature, as well as image datasets onto the same brain template, making it possible to run cross searches, find similar neurons and compare image data on our 3D Viewer.
A resource providing data on bioentities and their associated ontology terms for Plant Biology. The database provides access to ontology-based annotations of genes, phenotypes and germplasms from about 90 plant species. A number of internal and external ontologies are used to annotate the biological data available from this resource.
The AgroPortal project reuses the biomedical domain’s semantic tools and insights to serve agronomy, but also food, plant, agriculture and biodiversity sciences. We offer a portal that features ontology hosting, search, versioning, visualization, comment, and recommendation; enables semantic annotation; stores and exploits ontology alignments; and enables interoperation with the semantic web. The AgroPortal specifically satisfies requirements of the agronomy community in terms of ontology formats (e.g., SKOS vocabularies and trait dictionaries) and supported features (offering detailed metadata and advanced annotation capabilities). The AgroPortal content is automatically retrieved by FAIRsharing.org (https://fairsharing.org/) and the Agrisemantics Map of Data Standards (http://vest.agrisemantics.org/).
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