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Data publication with the structural biology data grid supports live analysis
Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established a diffraction data publication and dissemination system, Structural Biology Dat...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4786681/ https://www.ncbi.nlm.nih.gov/pubmed/26947396 http://dx.doi.org/10.1038/ncomms10882 |
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author | Meyer, Peter A. Socias, Stephanie Key, Jason Ransey, Elizabeth Tjon, Emily C. Buschiazzo, Alejandro Lei, Ming Botka, Chris Withrow, James Neau, David Rajashankar, Kanagalaghatta Anderson, Karen S. Baxter, Richard H. Blacklow, Stephen C. Boggon, Titus J. Bonvin, Alexandre M. J. J. Borek, Dominika Brett, Tom J. Caflisch, Amedeo Chang, Chung-I Chazin, Walter J. Corbett, Kevin D. Cosgrove, Michael S. Crosson, Sean Dhe-Paganon, Sirano Di Cera, Enrico Drennan, Catherine L. Eck, Michael J. Eichman, Brandt F. Fan, Qing R. Ferré-D'Amaré, Adrian R. Christopher Fromme, J. Garcia, K. Christopher Gaudet, Rachelle Gong, Peng Harrison, Stephen C. Heldwein, Ekaterina E. Jia, Zongchao Keenan, Robert J. Kruse, Andrew C. Kvansakul, Marc McLellan, Jason S. Modis, Yorgo Nam, Yunsun Otwinowski, Zbyszek Pai, Emil F. Pereira, Pedro José Barbosa Petosa, Carlo Raman, C. S. Rapoport, Tom A. Roll-Mecak, Antonina Rosen, Michael K. Rudenko, Gabby Schlessinger, Joseph Schwartz, Thomas U. Shamoo, Yousif Sondermann, Holger Tao, Yizhi J. Tolia, Niraj H. Tsodikov, Oleg V. Westover, Kenneth D. Wu, Hao Foster, Ian Fraser, James S. Maia, Filipe R. N C. Gonen, Tamir Kirchhausen, Tom Diederichs, Kay Crosas, Mercè Sliz, Piotr |
author_facet | Meyer, Peter A. Socias, Stephanie Key, Jason Ransey, Elizabeth Tjon, Emily C. Buschiazzo, Alejandro Lei, Ming Botka, Chris Withrow, James Neau, David Rajashankar, Kanagalaghatta Anderson, Karen S. Baxter, Richard H. Blacklow, Stephen C. Boggon, Titus J. Bonvin, Alexandre M. J. J. Borek, Dominika Brett, Tom J. Caflisch, Amedeo Chang, Chung-I Chazin, Walter J. Corbett, Kevin D. Cosgrove, Michael S. Crosson, Sean Dhe-Paganon, Sirano Di Cera, Enrico Drennan, Catherine L. Eck, Michael J. Eichman, Brandt F. Fan, Qing R. Ferré-D'Amaré, Adrian R. Christopher Fromme, J. Garcia, K. Christopher Gaudet, Rachelle Gong, Peng Harrison, Stephen C. Heldwein, Ekaterina E. Jia, Zongchao Keenan, Robert J. Kruse, Andrew C. Kvansakul, Marc McLellan, Jason S. Modis, Yorgo Nam, Yunsun Otwinowski, Zbyszek Pai, Emil F. Pereira, Pedro José Barbosa Petosa, Carlo Raman, C. S. Rapoport, Tom A. Roll-Mecak, Antonina Rosen, Michael K. Rudenko, Gabby Schlessinger, Joseph Schwartz, Thomas U. Shamoo, Yousif Sondermann, Holger Tao, Yizhi J. Tolia, Niraj H. Tsodikov, Oleg V. Westover, Kenneth D. Wu, Hao Foster, Ian Fraser, James S. Maia, Filipe R. N C. Gonen, Tamir Kirchhausen, Tom Diederichs, Kay Crosas, Mercè Sliz, Piotr |
author_sort | Meyer, Peter A. |
collection | PubMed |
description | Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established a diffraction data publication and dissemination system, Structural Biology Data Grid (SBDG; data.sbgrid.org), to preserve primary experimental data sets that support scientific publications. Data sets are accessible to researchers through a community driven data grid, which facilitates global data access. Our analysis of a pilot collection of crystallographic data sets demonstrates that the information archived by SBDG is sufficient to reprocess data to statistics that meet or exceed the quality of the original published structures. SBDG has extended its services to the entire community and is used to develop support for other types of biomedical data sets. It is anticipated that access to the experimental data sets will enhance the paradigm shift in the community towards a much more dynamic body of continuously improving data analysis. |
format | Online Article Text |
id | pubmed-4786681 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Nature Publishing Group |
record_format | MEDLINE/PubMed |
spelling | pubmed-47866812016-03-16 Data publication with the structural biology data grid supports live analysis Meyer, Peter A. Socias, Stephanie Key, Jason Ransey, Elizabeth Tjon, Emily C. Buschiazzo, Alejandro Lei, Ming Botka, Chris Withrow, James Neau, David Rajashankar, Kanagalaghatta Anderson, Karen S. Baxter, Richard H. Blacklow, Stephen C. Boggon, Titus J. Bonvin, Alexandre M. J. J. Borek, Dominika Brett, Tom J. Caflisch, Amedeo Chang, Chung-I Chazin, Walter J. Corbett, Kevin D. Cosgrove, Michael S. Crosson, Sean Dhe-Paganon, Sirano Di Cera, Enrico Drennan, Catherine L. Eck, Michael J. Eichman, Brandt F. Fan, Qing R. Ferré-D'Amaré, Adrian R. Christopher Fromme, J. Garcia, K. Christopher Gaudet, Rachelle Gong, Peng Harrison, Stephen C. Heldwein, Ekaterina E. Jia, Zongchao Keenan, Robert J. Kruse, Andrew C. Kvansakul, Marc McLellan, Jason S. Modis, Yorgo Nam, Yunsun Otwinowski, Zbyszek Pai, Emil F. Pereira, Pedro José Barbosa Petosa, Carlo Raman, C. S. Rapoport, Tom A. Roll-Mecak, Antonina Rosen, Michael K. Rudenko, Gabby Schlessinger, Joseph Schwartz, Thomas U. Shamoo, Yousif Sondermann, Holger Tao, Yizhi J. Tolia, Niraj H. Tsodikov, Oleg V. Westover, Kenneth D. Wu, Hao Foster, Ian Fraser, James S. Maia, Filipe R. N C. Gonen, Tamir Kirchhausen, Tom Diederichs, Kay Crosas, Mercè Sliz, Piotr Nat Commun Article Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established a diffraction data publication and dissemination system, Structural Biology Data Grid (SBDG; data.sbgrid.org), to preserve primary experimental data sets that support scientific publications. Data sets are accessible to researchers through a community driven data grid, which facilitates global data access. Our analysis of a pilot collection of crystallographic data sets demonstrates that the information archived by SBDG is sufficient to reprocess data to statistics that meet or exceed the quality of the original published structures. SBDG has extended its services to the entire community and is used to develop support for other types of biomedical data sets. It is anticipated that access to the experimental data sets will enhance the paradigm shift in the community towards a much more dynamic body of continuously improving data analysis. Nature Publishing Group 2016-03-07 /pmc/articles/PMC4786681/ /pubmed/26947396 http://dx.doi.org/10.1038/ncomms10882 Text en Copyright © 2016, Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved. http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article's Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ |
spellingShingle | Article Meyer, Peter A. Socias, Stephanie Key, Jason Ransey, Elizabeth Tjon, Emily C. Buschiazzo, Alejandro Lei, Ming Botka, Chris Withrow, James Neau, David Rajashankar, Kanagalaghatta Anderson, Karen S. Baxter, Richard H. Blacklow, Stephen C. Boggon, Titus J. Bonvin, Alexandre M. J. J. Borek, Dominika Brett, Tom J. Caflisch, Amedeo Chang, Chung-I Chazin, Walter J. Corbett, Kevin D. Cosgrove, Michael S. Crosson, Sean Dhe-Paganon, Sirano Di Cera, Enrico Drennan, Catherine L. Eck, Michael J. Eichman, Brandt F. Fan, Qing R. Ferré-D'Amaré, Adrian R. Christopher Fromme, J. Garcia, K. Christopher Gaudet, Rachelle Gong, Peng Harrison, Stephen C. Heldwein, Ekaterina E. Jia, Zongchao Keenan, Robert J. Kruse, Andrew C. Kvansakul, Marc McLellan, Jason S. Modis, Yorgo Nam, Yunsun Otwinowski, Zbyszek Pai, Emil F. Pereira, Pedro José Barbosa Petosa, Carlo Raman, C. S. Rapoport, Tom A. Roll-Mecak, Antonina Rosen, Michael K. Rudenko, Gabby Schlessinger, Joseph Schwartz, Thomas U. Shamoo, Yousif Sondermann, Holger Tao, Yizhi J. Tolia, Niraj H. Tsodikov, Oleg V. Westover, Kenneth D. Wu, Hao Foster, Ian Fraser, James S. Maia, Filipe R. N C. Gonen, Tamir Kirchhausen, Tom Diederichs, Kay Crosas, Mercè Sliz, Piotr Data publication with the structural biology data grid supports live analysis |
title | Data publication with the structural biology data grid supports live analysis |
title_full | Data publication with the structural biology data grid supports live analysis |
title_fullStr | Data publication with the structural biology data grid supports live analysis |
title_full_unstemmed | Data publication with the structural biology data grid supports live analysis |
title_short | Data publication with the structural biology data grid supports live analysis |
title_sort | data publication with the structural biology data grid supports live analysis |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4786681/ https://www.ncbi.nlm.nih.gov/pubmed/26947396 http://dx.doi.org/10.1038/ncomms10882 |
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