Cargando…
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...
Autores principales: | , , , , , , , , , , , , , , , , , , |
---|---|
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 |
_version_ | 1785118722170552320 |
---|---|
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. |
format | Online Article Text |
id | pubmed-10565567 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Pensoft Publishers |
record_format | MEDLINE/PubMed |
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 |
work_keys_str_mv | AT meyerraissa aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT appeltansward aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT duncanwilliamd aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT dimitrovamariya aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT ganyiming aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT stjernegaardjeppesenthomas aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT mungallchristopher aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT pauldeborahl aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT provoostpieter aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT robertsontim aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT schrimllynn aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT suominensaara aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT wallsramona aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT sweetlovemaxime aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT ungvisotheary aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT vandeputteanton aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT walliselycia aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT wieczorekjohn aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability AT buttigiegpierluigi aligningstandardscommunitiesforomicsbiodiversitydatasustainabledarwincoremixsinteroperability |