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Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem
Structural biology aims at characterizing the structural and dynamic properties of biological macromolecules at atomic details. Gaining insight into three dimensional structures of biomolecules and their interactions is critical for understanding the vast majority of cellular processes, with direct...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8356364/ https://www.ncbi.nlm.nih.gov/pubmed/34395534 http://dx.doi.org/10.3389/fmolb.2021.729513 |
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author | Honorato, Rodrigo V. Koukos, Panagiotis I. Jiménez-García, Brian Tsaregorodtsev, Andrei Verlato, Marco Giachetti, Andrea Rosato, Antonio Bonvin, Alexandre M. J. J. |
author_facet | Honorato, Rodrigo V. Koukos, Panagiotis I. Jiménez-García, Brian Tsaregorodtsev, Andrei Verlato, Marco Giachetti, Andrea Rosato, Antonio Bonvin, Alexandre M. J. J. |
author_sort | Honorato, Rodrigo V. |
collection | PubMed |
description | Structural biology aims at characterizing the structural and dynamic properties of biological macromolecules at atomic details. Gaining insight into three dimensional structures of biomolecules and their interactions is critical for understanding the vast majority of cellular processes, with direct applications in health and food sciences. Since 2010, the WeNMR project (www.wenmr.eu) has implemented numerous web-based services to facilitate the use of advanced computational tools by researchers in the field, using the high throughput computing infrastructure provided by EGI. These services have been further developed in subsequent initiatives under H2020 projects and are now operating as Thematic Services in the European Open Science Cloud portal (www.eosc-portal.eu), sending >12 millions of jobs and using around 4,000 CPU-years per year. Here we review 10 years of successful e-infrastructure solutions serving a large worldwide community of over 23,000 users to date, providing them with user-friendly, web-based solutions that run complex workflows in structural biology. The current set of active WeNMR portals are described, together with the complex backend machinery that allows distributed computing resources to be harvested efficiently. |
format | Online Article Text |
id | pubmed-8356364 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-83563642021-08-12 Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem Honorato, Rodrigo V. Koukos, Panagiotis I. Jiménez-García, Brian Tsaregorodtsev, Andrei Verlato, Marco Giachetti, Andrea Rosato, Antonio Bonvin, Alexandre M. J. J. Front Mol Biosci Molecular Biosciences Structural biology aims at characterizing the structural and dynamic properties of biological macromolecules at atomic details. Gaining insight into three dimensional structures of biomolecules and their interactions is critical for understanding the vast majority of cellular processes, with direct applications in health and food sciences. Since 2010, the WeNMR project (www.wenmr.eu) has implemented numerous web-based services to facilitate the use of advanced computational tools by researchers in the field, using the high throughput computing infrastructure provided by EGI. These services have been further developed in subsequent initiatives under H2020 projects and are now operating as Thematic Services in the European Open Science Cloud portal (www.eosc-portal.eu), sending >12 millions of jobs and using around 4,000 CPU-years per year. Here we review 10 years of successful e-infrastructure solutions serving a large worldwide community of over 23,000 users to date, providing them with user-friendly, web-based solutions that run complex workflows in structural biology. The current set of active WeNMR portals are described, together with the complex backend machinery that allows distributed computing resources to be harvested efficiently. Frontiers Media S.A. 2021-07-28 /pmc/articles/PMC8356364/ /pubmed/34395534 http://dx.doi.org/10.3389/fmolb.2021.729513 Text en Copyright © 2021 Honorato, Koukos, Jiménez-García, Tsaregorodtsev, Verlato, Giachetti, Rosato and Bonvin. 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). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Molecular Biosciences Honorato, Rodrigo V. Koukos, Panagiotis I. Jiménez-García, Brian Tsaregorodtsev, Andrei Verlato, Marco Giachetti, Andrea Rosato, Antonio Bonvin, Alexandre M. J. J. Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem |
title | Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem |
title_full | Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem |
title_fullStr | Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem |
title_full_unstemmed | Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem |
title_short | Structural Biology in the Clouds: The WeNMR-EOSC Ecosystem |
title_sort | structural biology in the clouds: the wenmr-eosc ecosystem |
topic | Molecular Biosciences |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8356364/ https://www.ncbi.nlm.nih.gov/pubmed/34395534 http://dx.doi.org/10.3389/fmolb.2021.729513 |
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