Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases
Online, open access databases for biological knowledge serve as central repositories for research communities to store, find and analyze integrated, multi-disciplinary datasets. With increasing volumes, complexity and the need to integrate genomic, transcriptomic, metabolomic, proteomic, phenomic an...
| Autores principales: | , , , , , , , , , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Oxford University Press
2021
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/114280 |
| _version_ | 1855524486905856000 |
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| author | Staton, Margaret Cannon, Ethalinda K.S. Sanderson, Lacey-Anne Wegrzyn, Jill Anderson, Tavis Buehler, Sean Cobo-Simón, Irene Faaberg, Kay Grau, Emily Guignon, Valentin Gunoskey, Jessica Inderski, Blake Jung, Sook Lager, Kelly Main, Dorrie Poelchau, Monica F. Ramnath, Risharde Richter, Peter West, Joe Ficklin, Stephen |
| author_browse | Anderson, Tavis Buehler, Sean Cannon, Ethalinda K.S. Cobo-Simón, Irene Faaberg, Kay Ficklin, Stephen Grau, Emily Guignon, Valentin Gunoskey, Jessica Inderski, Blake Jung, Sook Lager, Kelly Main, Dorrie Poelchau, Monica F. Ramnath, Risharde Richter, Peter Sanderson, Lacey-Anne Staton, Margaret Wegrzyn, Jill West, Joe |
| author_facet | Staton, Margaret Cannon, Ethalinda K.S. Sanderson, Lacey-Anne Wegrzyn, Jill Anderson, Tavis Buehler, Sean Cobo-Simón, Irene Faaberg, Kay Grau, Emily Guignon, Valentin Gunoskey, Jessica Inderski, Blake Jung, Sook Lager, Kelly Main, Dorrie Poelchau, Monica F. Ramnath, Risharde Richter, Peter West, Joe Ficklin, Stephen |
| author_sort | Staton, Margaret |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Online, open access databases for biological knowledge serve as central repositories for research communities to store, find and analyze integrated, multi-disciplinary datasets. With increasing volumes, complexity and the need to integrate genomic, transcriptomic, metabolomic, proteomic, phenomic and environmental data, community databases face tremendous challenges in ongoing maintenance, expansion and upgrades. A common infrastructure framework using community standards shared by many databases can reduce development burden, provide interoperability, ensure use of common standards and support long-term sustainability. Tripal is a mature, open source platform built to meet this need. With ongoing improvement since its first release in 2009, Tripal provides full functionality for searching, browsing, loading and curating numerous types of data and is a primary technology powering at least 31 publicly available databases spanning plants, animals and human data, primarily storing genomics, genetics and breeding data. Tripal software development is managed by a shared, inclusive governance structure including both project management and advisory teams. Here, we report on the most important and innovative aspects of Tripal after 11 years development, including integration of diverse types of biological data, successful collaborative projects across member databases, and support for implementing FAIR principles. |
| format | Journal Article |
| id | CGSpace114280 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace1142802025-11-11T18:48:17Z Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases Staton, Margaret Cannon, Ethalinda K.S. Sanderson, Lacey-Anne Wegrzyn, Jill Anderson, Tavis Buehler, Sean Cobo-Simón, Irene Faaberg, Kay Grau, Emily Guignon, Valentin Gunoskey, Jessica Inderski, Blake Jung, Sook Lager, Kelly Main, Dorrie Poelchau, Monica F. Ramnath, Risharde Richter, Peter West, Joe Ficklin, Stephen open access data databases semantic standard genomics plant breeding genetics acceso abierto datos bases de datos Online, open access databases for biological knowledge serve as central repositories for research communities to store, find and analyze integrated, multi-disciplinary datasets. With increasing volumes, complexity and the need to integrate genomic, transcriptomic, metabolomic, proteomic, phenomic and environmental data, community databases face tremendous challenges in ongoing maintenance, expansion and upgrades. A common infrastructure framework using community standards shared by many databases can reduce development burden, provide interoperability, ensure use of common standards and support long-term sustainability. Tripal is a mature, open source platform built to meet this need. With ongoing improvement since its first release in 2009, Tripal provides full functionality for searching, browsing, loading and curating numerous types of data and is a primary technology powering at least 31 publicly available databases spanning plants, animals and human data, primarily storing genomics, genetics and breeding data. Tripal software development is managed by a shared, inclusive governance structure including both project management and advisory teams. Here, we report on the most important and innovative aspects of Tripal after 11 years development, including integration of diverse types of biological data, successful collaborative projects across member databases, and support for implementing FAIR principles. 2021-07-12 2021-07-14T12:30:26Z 2021-07-14T12:30:26Z Journal Article https://hdl.handle.net/10568/114280 en Open Access application/pdf Oxford University Press Staton, M.; Cannon, E.; Sanderson, L-A.; Wegrzyn, J.; Anderson, T.; Buehler, S.; Cobo-Simón, I.; Faaberg, K.; Grau, E.; Guignon, V.; Gunoskey, J.; Inderski, B.; Jung, S.; Lager, K.; Main, D.; Poelchau, M.; Ramnath, R.; Richter, P.; West, J.; Ficklin, S. (2021) Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases. Briefings in Bioinformatics, bbab238. 17 p. ISSN: 1477-4054 |
| spellingShingle | open access data databases semantic standard genomics plant breeding genetics acceso abierto datos bases de datos Staton, Margaret Cannon, Ethalinda K.S. Sanderson, Lacey-Anne Wegrzyn, Jill Anderson, Tavis Buehler, Sean Cobo-Simón, Irene Faaberg, Kay Grau, Emily Guignon, Valentin Gunoskey, Jessica Inderski, Blake Jung, Sook Lager, Kelly Main, Dorrie Poelchau, Monica F. Ramnath, Risharde Richter, Peter West, Joe Ficklin, Stephen Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases |
| title | Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases |
| title_full | Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases |
| title_fullStr | Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases |
| title_full_unstemmed | Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases |
| title_short | Tripal, a community update after 10 years of supporting open source, standards-based genetic, genomic and breeding databases |
| title_sort | tripal a community update after 10 years of supporting open source standards based genetic genomic and breeding databases |
| topic | open access data databases semantic standard genomics plant breeding genetics acceso abierto datos bases de datos |
| url | https://hdl.handle.net/10568/114280 |
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