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AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture

The future of agricultural research depends on data. The sheer volume of agricultural biological data being produced today makes excellent data management essential. Governmental agencies, publishers and science funders require data management plans for publicly funded research. Furthermore, the val...

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Autores principales: Harper, Lisa, Campbell, Jacqueline, Cannon, Ethalinda K S, Jung, Sook, Poelchau, Monica, Walls, Ramona, Andorf, Carson, Arnaud, Elizabeth, Berardini, Tanya Z, Birkett, Clayton, Cannon, Steve, Carson, James, Condon, Bradford, Cooper, Laurel, Dunn, Nathan, Elsik, Christine G, Farmer, Andrew, Ficklin, Stephen P, Grant, David, Grau, Emily, Herndon, Nic, Hu, Zhi-Liang, Humann, Jodi, Jaiswal, Pankaj, Jonquet, Clement, Laporte, Marie-Angélique, Larmande, Pierre, Lazo, Gerard, McCarthy, Fiona, Menda, Naama, Mungall, Christopher J, Munoz-Torres, Monica C, Naithani, Sushma, Nelson, Rex, Nesdill, Daureen, Park, Carissa, Reecy, James, Reiser, Leonore, Sanderson, Lacey-Anne, Sen, Taner Z, Staton, Margaret, Subramaniam, Sabarinath, Tello-Ruiz, Marcela Karey, Unda, Victor, Unni, Deepak, Wang, Liya, Ware, Doreen, Wegrzyn, Jill, Williams, Jason, Woodhouse, Margaret, Yu, Jing, Main, Doreen
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6146126/
https://www.ncbi.nlm.nih.gov/pubmed/30239679
http://dx.doi.org/10.1093/database/bay088
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author Harper, Lisa
Campbell, Jacqueline
Cannon, Ethalinda K S
Jung, Sook
Poelchau, Monica
Walls, Ramona
Andorf, Carson
Arnaud, Elizabeth
Berardini, Tanya Z
Birkett, Clayton
Cannon, Steve
Carson, James
Condon, Bradford
Cooper, Laurel
Dunn, Nathan
Elsik, Christine G
Farmer, Andrew
Ficklin, Stephen P
Grant, David
Grau, Emily
Herndon, Nic
Hu, Zhi-Liang
Humann, Jodi
Jaiswal, Pankaj
Jonquet, Clement
Laporte, Marie-Angélique
Larmande, Pierre
Lazo, Gerard
McCarthy, Fiona
Menda, Naama
Mungall, Christopher J
Munoz-Torres, Monica C
Naithani, Sushma
Nelson, Rex
Nesdill, Daureen
Park, Carissa
Reecy, James
Reiser, Leonore
Sanderson, Lacey-Anne
Sen, Taner Z
Staton, Margaret
Subramaniam, Sabarinath
Tello-Ruiz, Marcela Karey
Unda, Victor
Unni, Deepak
Wang, Liya
Ware, Doreen
Wegrzyn, Jill
Williams, Jason
Woodhouse, Margaret
Yu, Jing
Main, Doreen
author_facet Harper, Lisa
Campbell, Jacqueline
Cannon, Ethalinda K S
Jung, Sook
Poelchau, Monica
Walls, Ramona
Andorf, Carson
Arnaud, Elizabeth
Berardini, Tanya Z
Birkett, Clayton
Cannon, Steve
Carson, James
Condon, Bradford
Cooper, Laurel
Dunn, Nathan
Elsik, Christine G
Farmer, Andrew
Ficklin, Stephen P
Grant, David
Grau, Emily
Herndon, Nic
Hu, Zhi-Liang
Humann, Jodi
Jaiswal, Pankaj
Jonquet, Clement
Laporte, Marie-Angélique
Larmande, Pierre
Lazo, Gerard
McCarthy, Fiona
Menda, Naama
Mungall, Christopher J
Munoz-Torres, Monica C
Naithani, Sushma
Nelson, Rex
Nesdill, Daureen
Park, Carissa
Reecy, James
Reiser, Leonore
Sanderson, Lacey-Anne
Sen, Taner Z
Staton, Margaret
Subramaniam, Sabarinath
Tello-Ruiz, Marcela Karey
Unda, Victor
Unni, Deepak
Wang, Liya
Ware, Doreen
Wegrzyn, Jill
Williams, Jason
Woodhouse, Margaret
Yu, Jing
Main, Doreen
author_sort Harper, Lisa
collection PubMed
description The future of agricultural research depends on data. The sheer volume of agricultural biological data being produced today makes excellent data management essential. Governmental agencies, publishers and science funders require data management plans for publicly funded research. Furthermore, the value of data increases exponentially when they are properly stored, described, integrated and shared, so that they can be easily utilized in future analyses. AgBioData (https://www.agbiodata.org) is a consortium of people working at agricultural biological databases, data archives and knowledgbases who strive to identify common issues in database development, curation and management, with the goal of creating database products that are more Findable, Accessible, Interoperable and Reusable. We strive to promote authentic, detailed, accurate and explicit communication between all parties involved in scientific data. As a step toward this goal, we present the current state of biocuration, ontologies, metadata and persistence, database platforms, programmatic (machine) access to data, communication and sustainability with regard to data curation. Each section describes challenges and opportunities for these topics, along with recommendations and best practices.
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spelling pubmed-61461262018-09-25 AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture Harper, Lisa Campbell, Jacqueline Cannon, Ethalinda K S Jung, Sook Poelchau, Monica Walls, Ramona Andorf, Carson Arnaud, Elizabeth Berardini, Tanya Z Birkett, Clayton Cannon, Steve Carson, James Condon, Bradford Cooper, Laurel Dunn, Nathan Elsik, Christine G Farmer, Andrew Ficklin, Stephen P Grant, David Grau, Emily Herndon, Nic Hu, Zhi-Liang Humann, Jodi Jaiswal, Pankaj Jonquet, Clement Laporte, Marie-Angélique Larmande, Pierre Lazo, Gerard McCarthy, Fiona Menda, Naama Mungall, Christopher J Munoz-Torres, Monica C Naithani, Sushma Nelson, Rex Nesdill, Daureen Park, Carissa Reecy, James Reiser, Leonore Sanderson, Lacey-Anne Sen, Taner Z Staton, Margaret Subramaniam, Sabarinath Tello-Ruiz, Marcela Karey Unda, Victor Unni, Deepak Wang, Liya Ware, Doreen Wegrzyn, Jill Williams, Jason Woodhouse, Margaret Yu, Jing Main, Doreen Database (Oxford) Original Article The future of agricultural research depends on data. The sheer volume of agricultural biological data being produced today makes excellent data management essential. Governmental agencies, publishers and science funders require data management plans for publicly funded research. Furthermore, the value of data increases exponentially when they are properly stored, described, integrated and shared, so that they can be easily utilized in future analyses. AgBioData (https://www.agbiodata.org) is a consortium of people working at agricultural biological databases, data archives and knowledgbases who strive to identify common issues in database development, curation and management, with the goal of creating database products that are more Findable, Accessible, Interoperable and Reusable. We strive to promote authentic, detailed, accurate and explicit communication between all parties involved in scientific data. As a step toward this goal, we present the current state of biocuration, ontologies, metadata and persistence, database platforms, programmatic (machine) access to data, communication and sustainability with regard to data curation. Each section describes challenges and opportunities for these topics, along with recommendations and best practices. Oxford University Press 2018-09-18 /pmc/articles/PMC6146126/ /pubmed/30239679 http://dx.doi.org/10.1093/database/bay088 Text en © The Author(s) 2018. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Article
Harper, Lisa
Campbell, Jacqueline
Cannon, Ethalinda K S
Jung, Sook
Poelchau, Monica
Walls, Ramona
Andorf, Carson
Arnaud, Elizabeth
Berardini, Tanya Z
Birkett, Clayton
Cannon, Steve
Carson, James
Condon, Bradford
Cooper, Laurel
Dunn, Nathan
Elsik, Christine G
Farmer, Andrew
Ficklin, Stephen P
Grant, David
Grau, Emily
Herndon, Nic
Hu, Zhi-Liang
Humann, Jodi
Jaiswal, Pankaj
Jonquet, Clement
Laporte, Marie-Angélique
Larmande, Pierre
Lazo, Gerard
McCarthy, Fiona
Menda, Naama
Mungall, Christopher J
Munoz-Torres, Monica C
Naithani, Sushma
Nelson, Rex
Nesdill, Daureen
Park, Carissa
Reecy, James
Reiser, Leonore
Sanderson, Lacey-Anne
Sen, Taner Z
Staton, Margaret
Subramaniam, Sabarinath
Tello-Ruiz, Marcela Karey
Unda, Victor
Unni, Deepak
Wang, Liya
Ware, Doreen
Wegrzyn, Jill
Williams, Jason
Woodhouse, Margaret
Yu, Jing
Main, Doreen
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
title AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
title_full AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
title_fullStr AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
title_full_unstemmed AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
title_short AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
title_sort agbiodata consortium recommendations for sustainable genomics and genetics databases for agriculture
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6146126/
https://www.ncbi.nlm.nih.gov/pubmed/30239679
http://dx.doi.org/10.1093/database/bay088
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