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Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability

The standardization of data, encompassing both primary and contextual information (metadata), plays a pivotal role in facilitating data (re-)use, integration, and knowledge generation. However, the biodiversity and omics communities, converging on omics biodiversity data, have historically developed...

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Autores principales: Meyer, Raïssa, Appeltans, Ward, Duncan, William D., Dimitrova, Mariya, Gan, Yi-Ming, Stjernegaard Jeppesen, Thomas, Mungall, Christopher, Paul, Deborah L, Provoost, Pieter, Robertson, Tim, Schriml, Lynn, Suominen, Saara, Walls, Ramona, Sweetlove, Maxime, Ung, Visotheary, Van de Putte, Anton, Wallis, Elycia, Wieczorek, John, Buttigieg, Pier Luigi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Pensoft Publishers 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10565567/
https://www.ncbi.nlm.nih.gov/pubmed/37829294
http://dx.doi.org/10.3897/BDJ.11.e112420
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author Meyer, Raïssa
Appeltans, Ward
Duncan, William D.
Dimitrova, Mariya
Gan, Yi-Ming
Stjernegaard Jeppesen, Thomas
Mungall, Christopher
Paul, Deborah L
Provoost, Pieter
Robertson, Tim
Schriml, Lynn
Suominen, Saara
Walls, Ramona
Sweetlove, Maxime
Ung, Visotheary
Van de Putte, Anton
Wallis, Elycia
Wieczorek, John
Buttigieg, Pier Luigi
author_facet Meyer, Raïssa
Appeltans, Ward
Duncan, William D.
Dimitrova, Mariya
Gan, Yi-Ming
Stjernegaard Jeppesen, Thomas
Mungall, Christopher
Paul, Deborah L
Provoost, Pieter
Robertson, Tim
Schriml, Lynn
Suominen, Saara
Walls, Ramona
Sweetlove, Maxime
Ung, Visotheary
Van de Putte, Anton
Wallis, Elycia
Wieczorek, John
Buttigieg, Pier Luigi
author_sort Meyer, Raïssa
collection PubMed
description The standardization of data, encompassing both primary and contextual information (metadata), plays a pivotal role in facilitating data (re-)use, integration, and knowledge generation. However, the biodiversity and omics communities, converging on omics biodiversity data, have historically developed and adopted their own distinct standards, hindering effective (meta)data integration and collaboration. In response to this challenge, the Task Group (TG) for Sustainable DwC-MIxS Interoperability was established. Convening experts from the Biodiversity Information Standards (TDWG) and the Genomic Standards Consortium (GSC) alongside external stakeholders, the TG aimed to promote sustainable interoperability between the Minimum Information about any (x) Sequence (MIxS) and Darwin Core (DwC) specifications. To achieve this goal, the TG utilized the Simple Standard for Sharing Ontology Mappings (SSSOM) to create a comprehensive mapping of DwC keys to MIxS keys. This mapping, combined with the development of the MIxS-DwC extension, enables the incorporation of MIxS core terms into DwC-compliant metadata records, facilitating seamless data exchange between MIxS and DwC user communities. Through the implementation of this translation layer, data produced in either MIxS- or DwC-compliant formats can now be efficiently brokered, breaking down silos and fostering closer collaboration between the biodiversity and omics communities. To ensure its sustainability and lasting impact, TDWG and GSC have both signed a Memorandum of Understanding (MoU) on creating a continuous model to synchronize their standards. These achievements mark a significant step forward in enhancing data sharing and utilization across domains, thereby unlocking new opportunities for scientific discovery and advancement.
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spelling pubmed-105655672023-10-12 Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability Meyer, Raïssa Appeltans, Ward Duncan, William D. Dimitrova, Mariya Gan, Yi-Ming Stjernegaard Jeppesen, Thomas Mungall, Christopher Paul, Deborah L Provoost, Pieter Robertson, Tim Schriml, Lynn Suominen, Saara Walls, Ramona Sweetlove, Maxime Ung, Visotheary Van de Putte, Anton Wallis, Elycia Wieczorek, John Buttigieg, Pier Luigi Biodivers Data J Methods The standardization of data, encompassing both primary and contextual information (metadata), plays a pivotal role in facilitating data (re-)use, integration, and knowledge generation. However, the biodiversity and omics communities, converging on omics biodiversity data, have historically developed and adopted their own distinct standards, hindering effective (meta)data integration and collaboration. In response to this challenge, the Task Group (TG) for Sustainable DwC-MIxS Interoperability was established. Convening experts from the Biodiversity Information Standards (TDWG) and the Genomic Standards Consortium (GSC) alongside external stakeholders, the TG aimed to promote sustainable interoperability between the Minimum Information about any (x) Sequence (MIxS) and Darwin Core (DwC) specifications. To achieve this goal, the TG utilized the Simple Standard for Sharing Ontology Mappings (SSSOM) to create a comprehensive mapping of DwC keys to MIxS keys. This mapping, combined with the development of the MIxS-DwC extension, enables the incorporation of MIxS core terms into DwC-compliant metadata records, facilitating seamless data exchange between MIxS and DwC user communities. Through the implementation of this translation layer, data produced in either MIxS- or DwC-compliant formats can now be efficiently brokered, breaking down silos and fostering closer collaboration between the biodiversity and omics communities. To ensure its sustainability and lasting impact, TDWG and GSC have both signed a Memorandum of Understanding (MoU) on creating a continuous model to synchronize their standards. These achievements mark a significant step forward in enhancing data sharing and utilization across domains, thereby unlocking new opportunities for scientific discovery and advancement. Pensoft Publishers 2023-10-03 /pmc/articles/PMC10565567/ /pubmed/37829294 http://dx.doi.org/10.3897/BDJ.11.e112420 Text en Raïssa Meyer, Ward Appeltans, William D. Duncan, Mariya Dimitrova, Yi-Ming Gan, Thomas Stjernegaard Jeppesen, Christopher Mungall, Deborah L Paul, Pieter Provoost, Tim Robertson, Lynn Schriml, Saara Suominen, Ramona Walls, Maxime Sweetlove, Visotheary Ung, Anton Van de Putte, Elycia Wallis, John Wieczorek, Pier Luigi Buttigieg https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Methods
Meyer, Raïssa
Appeltans, Ward
Duncan, William D.
Dimitrova, Mariya
Gan, Yi-Ming
Stjernegaard Jeppesen, Thomas
Mungall, Christopher
Paul, Deborah L
Provoost, Pieter
Robertson, Tim
Schriml, Lynn
Suominen, Saara
Walls, Ramona
Sweetlove, Maxime
Ung, Visotheary
Van de Putte, Anton
Wallis, Elycia
Wieczorek, John
Buttigieg, Pier Luigi
Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability
title Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability
title_full Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability
title_fullStr Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability
title_full_unstemmed Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability
title_short Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability
title_sort aligning standards communities for omics biodiversity data: sustainable darwin core-mixs interoperability
topic Methods
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10565567/
https://www.ncbi.nlm.nih.gov/pubmed/37829294
http://dx.doi.org/10.3897/BDJ.11.e112420
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