Plant Trait Ontology
How to cite this record FAIRsharing.org: TO; Plant Trait Ontology; DOI: https://doi.org/10.25504/FAIRsharing.w69t6r; Last edited: July 5, 2019, 5:26 p.m.; Last accessed: Jan 20 2020 9:56 a.m.
Record updated: July 2, 2019, 1:31 p.m. by The FAIRsharing Team.
Edits to 'https://fairsharing.org/FAIRsharing.w69t6r' by 'The FAIRsharing Team' at 13:31, 02 Jul 2019 (approved): 'status' has been modified: Before: DEV After: RDY 'organizations' has been modified: Before: Gene Ontology Consortium|http://www.geneontology.org/|Maintains Oregon State University, USA|http://cgrb.oregonstate.edu|Undefined After: Gene Ontology Consortium|http://www.geneontology.org/|Maintains Oregon State University, USA|http://cgrb.oregonstate.edu|Maintains Added: Oregon State University, USA|http://cgrb.oregonstate.edu|Maintains Removed: Oregon State University, USA|http://cgrb.oregonstate.edu|Undefined 'supportLinks' has been modified: Before: contact form|http://planteome.org/contact help|https://github.com/Planteome/plant-trait-ontology/issues After: contact form|http://planteome.org/contact forum|https://github.com/Planteome/plant-trait-ontology/issues Added: forum|https://github.com/Planteome/plant-trait-ontology/issues Removed: help|https://github.com/Planteome/plant-trait-ontology/issues 'contactORCID' has been modified: Before: After: 0000-0002-6379-8932 'onto_disciplines' has been modified: Before: Life Sciences After: Life Sciences Ontology and Terminology Added: Ontology and Terminology Removed: 'related_standards' has been modified: Before: Castor Bean Ontology Crop Ontology SoyOntology After: Castor Bean Ontology Crop Ontology SoyOntology Plant Ontology Added: Plant Ontology Removed: 'onto_domains' has been modified: Before: phenotype After: phenotype structure Added: structure Removed: 'contactEmail' has been modified: Before: After: email@example.com 'contact' has been modified: Before: After: Laurel Cooper 'miriam_id' has been modified: Before: None After: 'dataProcesses' has been modified: Before: After: Ontology release Added: Ontology release Removed:
Edits to 'https://fairsharing.org/FAIRsharing.w69t6r' by 'The FAIRsharing Team' at 11:31, 04 May 2017 (approved): 'bioportal_abbreviation' has been modified: Before: PTO After: PTO Domain list has changed: Previous values: Phenotype|information content entity|http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Investigation.owl#birnlex_2087 Trait|| New values: Phenotype|information content entity|http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Investigation.owl#birnlex_2087 Trait|| Life Science|domain|
Edits to 'https://fairsharing.org/FAIRsharing.w69t6r' by 'cooperl' at 18:26, 03 May 2017 (approved): 'homepage' has been modified: Before: http://purl.bioontology.org/ontology/TO After: http://browser.planteome.org/amigo
No XSD schemas defined
Conditions of Use
|Ontology release||No link recorded|
No publications available
No guidelines defined
Models and Formats
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Gramene's purpose is to provide added value to plant genomics data sets available within the public sector, which will facilitate researchers' ability to understand the plant genomes and take advantage of genomic sequence known in one species for identifying and understanding corresponding genes, pathways and phenotypes in other plant species. It represents a broad spectrum of species ranging from unicellular photo-autotrophs, algae, monocots, dicots and other important taxonomic clades. Within Plant Reactome, a database portal of Gramene, there are over 60 plant genomes as well as pathways for more than 80 species.
Maize Genetics and Genomics Database
MaizeGDB is the maize research community's central repository for genetics and genomics information.
The Oryzabase is a comprehensive rice science database established in 2000 by rice researcher's committee in Japan. The Oryzabase consists of five parts, (1) genetic resource stock information, (2) gene dictionary, (3) chromosome maps, (4) mutant images, and (5) fundamental knowledge of rice science.
Genome Database for Rosaceae
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Manually Curated Database of Rice Proteins
‘Manually Curated Database of Rice Proteins’ (MCDRP) is a unique manually curated database based on published experimental data. Currently, the database has data for over 1800 rice proteins curated from > 4000 different experiments of over 400 research articles. Since every aspect of the experiment such as gene name, plant type, tissue and developmental stage has been digitized, experimental data can be rapidly accessed and integrated.
The Triticeae Toolbox
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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 Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.
Brassica Information Portal
The Brassica Information Portal is a web repository for population and trait scoring information related to the Brassica breeding community. It provides information about quantitative trait loci and links curated Brassica phenotype experimental data with genotype information stored in external data sources. Advanced data submission capabilities and APIs enable users to store and publish their own study results in BIP. The repository can be easily browsed thanks to a set of user-friendly query interfaces.
Metabolomic Repository Bordeaux
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DES-TOMATO is a topic-specific literature exploration system developed to allow the exploration of information related to tomato. The information provided in DES-TOMATO is obtained through the text-mining of available scientific literature, namely full-length articles in PubMed Central and titles and abstracts in PubMed.
Agronomic Linked Data
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The LEAFDATA resource collects information from primary research articles focusing on Arabidopsis leaf growth and development. The result section of selected papers is manually annotated and organized into distinct categories. Text fragments of the manuscripts are displayed with links to the original papers on PubMed.
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