The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics
The Planteome project (http://www.planteome.org) provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics dat...
| Main Authors: | , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Oxford University Press
2018
|
| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/89498 |
| _version_ | 1855522607064940544 |
|---|---|
| author | Cooper, Laurel D. Meier, A. Laporte, Marie-Angélique Elser, J.L. Mungall, C. Sinn, B.T. Cavaliere, D. Carbon, S. Dunn, N.A. Smith, B. Qu, B. Preece, J. Zhang, E. Todorovic, S. Gkouto, G. Doonan, J.H. Stevenson, D.W. Arnaud, Elizabeth Jaiswal, P. |
| author_browse | Arnaud, Elizabeth Carbon, S. Cavaliere, D. Cooper, Laurel D. Doonan, J.H. Dunn, N.A. Elser, J.L. Gkouto, G. Jaiswal, P. Laporte, Marie-Angélique Meier, A. Mungall, C. Preece, J. Qu, B. Sinn, B.T. Smith, B. Stevenson, D.W. Todorovic, S. Zhang, E. |
| author_facet | Cooper, Laurel D. Meier, A. Laporte, Marie-Angélique Elser, J.L. Mungall, C. Sinn, B.T. Cavaliere, D. Carbon, S. Dunn, N.A. Smith, B. Qu, B. Preece, J. Zhang, E. Todorovic, S. Gkouto, G. Doonan, J.H. Stevenson, D.W. Arnaud, Elizabeth Jaiswal, P. |
| author_sort | Cooper, Laurel D. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | The Planteome project (http://www.planteome.org) provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics data. The reference ontologies include the Plant Ontology, Plant Trait Ontology and the Plant Experimental Conditions Ontology developed by the Planteome project, along with the Gene Ontology, Chemical Entities of Biological Interest, Phenotype and Attribute Ontology, and others. The project also provides access to species-specific Crop Ontologies developed by various plant breeding and research communities from around the world. We provide integrated data on plant traits, phenotypes, and gene function and expression from 95 plant taxa, annotated with reference ontology terms. The Planteome project is developing a plant gene annotation platform; Planteome Noctua, to facilitate community engagement. All the Planteome ontologies are publicly available and are maintained at the Planteome GitHub site (https://github.com/Planteome) for sharing, tracking revisions and new requests. The annotated data are freely accessible from the ontology browser (http://browser.planteome.org/amigo) and our data repository. |
| format | Journal Article |
| id | CGSpace89498 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace894982025-11-12T05:41:01Z The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics Cooper, Laurel D. Meier, A. Laporte, Marie-Angélique Elser, J.L. Mungall, C. Sinn, B.T. Cavaliere, D. Carbon, S. Dunn, N.A. Smith, B. Qu, B. Preece, J. Zhang, E. Todorovic, S. Gkouto, G. Doonan, J.H. Stevenson, D.W. Arnaud, Elizabeth Jaiswal, P. knowledge organization system ontology relationship scheme data botany databases The Planteome project (http://www.planteome.org) provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics data. The reference ontologies include the Plant Ontology, Plant Trait Ontology and the Plant Experimental Conditions Ontology developed by the Planteome project, along with the Gene Ontology, Chemical Entities of Biological Interest, Phenotype and Attribute Ontology, and others. The project also provides access to species-specific Crop Ontologies developed by various plant breeding and research communities from around the world. We provide integrated data on plant traits, phenotypes, and gene function and expression from 95 plant taxa, annotated with reference ontology terms. The Planteome project is developing a plant gene annotation platform; Planteome Noctua, to facilitate community engagement. All the Planteome ontologies are publicly available and are maintained at the Planteome GitHub site (https://github.com/Planteome) for sharing, tracking revisions and new requests. The annotated data are freely accessible from the ontology browser (http://browser.planteome.org/amigo) and our data repository. 2018-01-04 2017-11-27T12:46:53Z 2017-11-27T12:46:53Z Journal Article https://hdl.handle.net/10568/89498 en Open Access application/pdf Oxford University Press Cooper, L.; Meier, A.; Laporte, M-A.; Elser, J.L.; Mungall, C.; Sinn, B.T.; Cavaliere, D.; Carbon, S.; Dunn, N.A.; Smith, B.; Qu, B.; Preece, J.; Zhang, E.; Todorovic, S.; Gkouto, G.; Doonan, J.H.; Stevenson, D.W.; Arnaud, E.; Jaiswal, P. (2017) The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics. Nucleic Acids Research, gkx1152. ISSN:0305-1048 |
| spellingShingle | knowledge organization system ontology relationship scheme data botany databases Cooper, Laurel D. Meier, A. Laporte, Marie-Angélique Elser, J.L. Mungall, C. Sinn, B.T. Cavaliere, D. Carbon, S. Dunn, N.A. Smith, B. Qu, B. Preece, J. Zhang, E. Todorovic, S. Gkouto, G. Doonan, J.H. Stevenson, D.W. Arnaud, Elizabeth Jaiswal, P. The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics |
| title | The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics |
| title_full | The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics |
| title_fullStr | The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics |
| title_full_unstemmed | The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics |
| title_short | The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics |
| title_sort | planteome database an integrated resource for reference ontologies plant genomics and phenomics |
| topic | knowledge organization system ontology relationship scheme data botany databases |
| url | https://hdl.handle.net/10568/89498 |
| work_keys_str_mv | AT cooperlaureld theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT meiera theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT laportemarieangelique theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT elserjl theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT mungallc theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT sinnbt theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT cavaliered theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT carbons theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT dunnna theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT smithb theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT qub theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT preecej theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT zhange theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT todorovics theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT gkoutog theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT doonanjh theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT stevensondw theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT arnaudelizabeth theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT jaiswalp theplanteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT cooperlaureld planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT meiera planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT laportemarieangelique planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT elserjl planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT mungallc planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT sinnbt planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT cavaliered planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT carbons planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT dunnna planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT smithb planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT qub planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT preecej planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT zhange planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT todorovics planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT gkoutog planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT doonanjh planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT stevensondw planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT arnaudelizabeth planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics AT jaiswalp planteomedatabaseanintegratedresourceforreferenceontologiesplantgenomicsandphenomics |