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3DBionotes COVID-19 edition

SUMMARY: The web platform 3DBionotes-WS integrates multiple web services and an interactive web viewer to provide a unified environment in which biological annotations can be analyzed in their structural context. Since the COVID-19 outbreak, new structural data from many viral proteins have been pro...

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Autores principales: Macias, Jose Ramon, Sanchez-Garcia, Ruben, Conesa, Pablo, Ramirez-Aportela, Erney, Martinez Gonzalez, Marta, Wert-Carvajal, Carlos, Parra-Perez, Alberto M, Segura Mora, Joan, Horrell, Sam, Thorn, Andrea, Sorzano, Carlos O S, Carazo, Jose Maria
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8241415/
https://www.ncbi.nlm.nih.gov/pubmed/34014278
http://dx.doi.org/10.1093/bioinformatics/btab397
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author Macias, Jose Ramon
Sanchez-Garcia, Ruben
Conesa, Pablo
Ramirez-Aportela, Erney
Martinez Gonzalez, Marta
Wert-Carvajal, Carlos
Parra-Perez, Alberto M
Segura Mora, Joan
Horrell, Sam
Thorn, Andrea
Sorzano, Carlos O S
Carazo, Jose Maria
author_facet Macias, Jose Ramon
Sanchez-Garcia, Ruben
Conesa, Pablo
Ramirez-Aportela, Erney
Martinez Gonzalez, Marta
Wert-Carvajal, Carlos
Parra-Perez, Alberto M
Segura Mora, Joan
Horrell, Sam
Thorn, Andrea
Sorzano, Carlos O S
Carazo, Jose Maria
author_sort Macias, Jose Ramon
collection PubMed
description SUMMARY: The web platform 3DBionotes-WS integrates multiple web services and an interactive web viewer to provide a unified environment in which biological annotations can be analyzed in their structural context. Since the COVID-19 outbreak, new structural data from many viral proteins have been provided at a very fast pace. This effort includes many cryogenic electron microscopy (cryo-EM) studies, together with more traditional ones (X-rays, NMR), using several modeling approaches and complemented with structural predictions. At the same time, a plethora of new genomics and interactomics information (including fragment screening and structure-based virtual screening efforts) have been made available from different servers. In this context, we have developed 3DBionotes-COVID-19 as an answer to: (i) the need to explore multiomics data in a unified context with a special focus on structural information and (ii) the drive to incorporate quality measurements, especially in the form of advanced validation metrics for cryo-EM. AVAILABILITY AND IMPLEMENTATION: https://3dbionotes.cnb.csic.es/ws/covid19. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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spelling pubmed-82414152021-06-30 3DBionotes COVID-19 edition Macias, Jose Ramon Sanchez-Garcia, Ruben Conesa, Pablo Ramirez-Aportela, Erney Martinez Gonzalez, Marta Wert-Carvajal, Carlos Parra-Perez, Alberto M Segura Mora, Joan Horrell, Sam Thorn, Andrea Sorzano, Carlos O S Carazo, Jose Maria Bioinformatics Applications Notes SUMMARY: The web platform 3DBionotes-WS integrates multiple web services and an interactive web viewer to provide a unified environment in which biological annotations can be analyzed in their structural context. Since the COVID-19 outbreak, new structural data from many viral proteins have been provided at a very fast pace. This effort includes many cryogenic electron microscopy (cryo-EM) studies, together with more traditional ones (X-rays, NMR), using several modeling approaches and complemented with structural predictions. At the same time, a plethora of new genomics and interactomics information (including fragment screening and structure-based virtual screening efforts) have been made available from different servers. In this context, we have developed 3DBionotes-COVID-19 as an answer to: (i) the need to explore multiomics data in a unified context with a special focus on structural information and (ii) the drive to incorporate quality measurements, especially in the form of advanced validation metrics for cryo-EM. AVAILABILITY AND IMPLEMENTATION: https://3dbionotes.cnb.csic.es/ws/covid19. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. Oxford University Press 2021-05-20 /pmc/articles/PMC8241415/ /pubmed/34014278 http://dx.doi.org/10.1093/bioinformatics/btab397 Text en © The Author(s) 2021. Published by Oxford University Press. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Applications Notes
Macias, Jose Ramon
Sanchez-Garcia, Ruben
Conesa, Pablo
Ramirez-Aportela, Erney
Martinez Gonzalez, Marta
Wert-Carvajal, Carlos
Parra-Perez, Alberto M
Segura Mora, Joan
Horrell, Sam
Thorn, Andrea
Sorzano, Carlos O S
Carazo, Jose Maria
3DBionotes COVID-19 edition
title 3DBionotes COVID-19 edition
title_full 3DBionotes COVID-19 edition
title_fullStr 3DBionotes COVID-19 edition
title_full_unstemmed 3DBionotes COVID-19 edition
title_short 3DBionotes COVID-19 edition
title_sort 3dbionotes covid-19 edition
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8241415/
https://www.ncbi.nlm.nih.gov/pubmed/34014278
http://dx.doi.org/10.1093/bioinformatics/btab397
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