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PlatformTM, a standards-based data custodianship platform for translational medicine research

Biomedical informatics has traditionally adopted a linear view of the informatics process (collect, store and analyse) in translational medicine (TM) studies; focusing primarily on the challenges in data integration and analysis. However, a data management challenge presents itself with the new life...

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Autores principales: Emam, Ibrahim, Elyasigomari, Vahid, Matthews, Alex, Pavlidis, Stelios, Rocca-Serra, Philippe, Guitton, Florian, Verbeeck, Denny, Grainger, Lucinda, Borgogni, Erica, Del Giudice, Giuseppe, Saqi, Mansoor, Houston, Paul, Guo, Yike
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6692384/
https://www.ncbi.nlm.nih.gov/pubmed/31409798
http://dx.doi.org/10.1038/s41597-019-0156-9
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author Emam, Ibrahim
Elyasigomari, Vahid
Matthews, Alex
Pavlidis, Stelios
Rocca-Serra, Philippe
Guitton, Florian
Verbeeck, Denny
Grainger, Lucinda
Borgogni, Erica
Del Giudice, Giuseppe
Saqi, Mansoor
Houston, Paul
Guo, Yike
author_facet Emam, Ibrahim
Elyasigomari, Vahid
Matthews, Alex
Pavlidis, Stelios
Rocca-Serra, Philippe
Guitton, Florian
Verbeeck, Denny
Grainger, Lucinda
Borgogni, Erica
Del Giudice, Giuseppe
Saqi, Mansoor
Houston, Paul
Guo, Yike
author_sort Emam, Ibrahim
collection PubMed
description Biomedical informatics has traditionally adopted a linear view of the informatics process (collect, store and analyse) in translational medicine (TM) studies; focusing primarily on the challenges in data integration and analysis. However, a data management challenge presents itself with the new lifecycle view of data emphasized by the recent calls for data re-use, long term data preservation, and data sharing. There is currently a lack of dedicated infrastructure focused on the ‘manageability’ of the data lifecycle in TM research between data collection and analysis. Current community efforts towards establishing a culture for open science prompt the creation of a data custodianship environment for management of TM data assets to support data reuse and reproducibility of research results. Here we present the development of a lifecycle-based methodology to create a metadata management framework based on community driven standards for standardisation, consolidation and integration of TM research data. Based on this framework, we also present the development of a new platform (PlatformTM) focused on managing the lifecycle for translational research data assets.
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spelling pubmed-66923842019-08-19 PlatformTM, a standards-based data custodianship platform for translational medicine research Emam, Ibrahim Elyasigomari, Vahid Matthews, Alex Pavlidis, Stelios Rocca-Serra, Philippe Guitton, Florian Verbeeck, Denny Grainger, Lucinda Borgogni, Erica Del Giudice, Giuseppe Saqi, Mansoor Houston, Paul Guo, Yike Sci Data Article Biomedical informatics has traditionally adopted a linear view of the informatics process (collect, store and analyse) in translational medicine (TM) studies; focusing primarily on the challenges in data integration and analysis. However, a data management challenge presents itself with the new lifecycle view of data emphasized by the recent calls for data re-use, long term data preservation, and data sharing. There is currently a lack of dedicated infrastructure focused on the ‘manageability’ of the data lifecycle in TM research between data collection and analysis. Current community efforts towards establishing a culture for open science prompt the creation of a data custodianship environment for management of TM data assets to support data reuse and reproducibility of research results. Here we present the development of a lifecycle-based methodology to create a metadata management framework based on community driven standards for standardisation, consolidation and integration of TM research data. Based on this framework, we also present the development of a new platform (PlatformTM) focused on managing the lifecycle for translational research data assets. Nature Publishing Group UK 2019-08-13 /pmc/articles/PMC6692384/ /pubmed/31409798 http://dx.doi.org/10.1038/s41597-019-0156-9 Text en © The Author(s) 2019 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Emam, Ibrahim
Elyasigomari, Vahid
Matthews, Alex
Pavlidis, Stelios
Rocca-Serra, Philippe
Guitton, Florian
Verbeeck, Denny
Grainger, Lucinda
Borgogni, Erica
Del Giudice, Giuseppe
Saqi, Mansoor
Houston, Paul
Guo, Yike
PlatformTM, a standards-based data custodianship platform for translational medicine research
title PlatformTM, a standards-based data custodianship platform for translational medicine research
title_full PlatformTM, a standards-based data custodianship platform for translational medicine research
title_fullStr PlatformTM, a standards-based data custodianship platform for translational medicine research
title_full_unstemmed PlatformTM, a standards-based data custodianship platform for translational medicine research
title_short PlatformTM, a standards-based data custodianship platform for translational medicine research
title_sort platformtm, a standards-based data custodianship platform for translational medicine research
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6692384/
https://www.ncbi.nlm.nih.gov/pubmed/31409798
http://dx.doi.org/10.1038/s41597-019-0156-9
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