Cryo-EM and single-particle analysis with Scipion
Cryo-electron microscopy has become one of the most important tools in biological research to reveal the structural information of macromolecules at near-atomic resolution. In single-particle analysis, the vitrified sample is imaged by an electron beam and the detectors at the end of the microscope...
| Authors: | ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; |
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| Format: | Article |
| Publication date: | 2021 |
| Country: | España |
| Institution: | Universidad Autónoma de Madrid |
| Repository: | Biblos-e Archivo. Repositorio Institucional de la UAM |
| Language: | English |
| OAI Identifier: | oai:repositorio.uam.es:10486/697520 |
| Online Access: | http://hdl.handle.net/10486/697520 https://dx.doi.org/10.3791/62261 |
| Access Level: | Open access |
| Keyword: | Cryo-electron microscop macromolecul near-atomic resolution Scipion Informática |
| _version_ | 1878729903200796672 |
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| author | Jiménez-Moreno, A. |
| author2 | Del Caño, L. Martínez, M. Ramírez-Aportela, E. Cuervo, A. Melero, R. Sánchez-García, R. Strelak, D. Fernández-Giménez, E. de Isidro-Gómez, F. P. Herreros, D. Conesa, P. Fonseca, Y. Maluenda, D. Jiménez de la Morena, J. Macías, J. R. Losana, P. Marabini Ruiz, Roberto Carazo, J. M. Sorzano, C. O.S. |
| author2_role | author author author author author author author author author author author author author author author author author author author |
| author_browse | Carazo, J. M. Conesa, P. Cuervo, A. Del Caño, L. Fernández-Giménez, E. Fonseca, Y. Herreros, D. Jiménez de la Morena, J. Jiménez-Moreno, A. Losana, P. Macías, J. R. Maluenda, D. Marabini Ruiz, Roberto Martínez, M. Melero, R. Ramírez-Aportela, E. Sorzano, C. O.S. Strelak, D. Sánchez-García, R. de Isidro-Gómez, F. P. |
| author_facet | Jiménez-Moreno, A. Del Caño, L. Martínez, M. Ramírez-Aportela, E. Cuervo, A. Melero, R. Sánchez-García, R. Strelak, D. Fernández-Giménez, E. de Isidro-Gómez, F. P. Herreros, D. Conesa, P. Fonseca, Y. Maluenda, D. Jiménez de la Morena, J. Macías, J. R. Losana, P. Marabini Ruiz, Roberto Carazo, J. M. Sorzano, C. O.S. |
| author_role | author |
| collection | Biblos-e Archivo. Repositorio Institucional de la UAM |
| description | Cryo-electron microscopy has become one of the most important tools in biological research to reveal the structural information of macromolecules at near-atomic resolution. In single-particle analysis, the vitrified sample is imaged by an electron beam and the detectors at the end of the microscope column produce movies of that sample. These movies contain thousands of images of identical particles in random orientations. The data need to go through an image processing workflow with multiple steps to obtain the final 3D reconstructed volume. The goal of the image processing workflow is to identify the acquisition parameters to be able to reconstruct the specimen under study. Scipion provides all the tools to create this workflow using several image processing packages in an integrative framework, also allowing the traceability of the results. In this article the whole image processing workflow in Scipion is presented and discussed with data coming from a real test case, giving all the details necessary to go from the movies obtained by the microscope to a high resolution final 3D reconstruction. Also, the power of using consensus tools that allow combining methods, and confirming results along every step of the workflow, improving the accuracy of the obtained results, is discussed. |
| eu_rights_str_mv | openAccess |
| format | article |
| id | ES_115be00a659bfa3648016aeeec876a16 |
| institution | Universidad Autónoma de Madrid |
| instname_str | Universidad Autónoma de Madrid |
| language | eng |
| network_acronym_str | ES |
| network_name_str | España |
| oai_identifier_str | oai:repositorio.uam.es:10486/697520 |
| publishDate | 2021 |
| publishDateSort | 2021 |
| publisher | MYJoVE Corporation |
| publisherStr | MYJoVE Corporation |
| reponame_str | Biblos-e Archivo. Repositorio Institucional de la UAM |
| spelling | Cryo-EM and single-particle analysis with Scipion Jiménez-Moreno, A. Del Caño, L. Martínez, M. Ramírez-Aportela, E. Cuervo, A. Melero, R. Sánchez-García, R. Strelak, D. Fernández-Giménez, E. de Isidro-Gómez, F. P. Herreros, D. Conesa, P. Fonseca, Y. Maluenda, D. Jiménez de la Morena, J. Macías, J. R. Losana, P. Marabini Ruiz, Roberto Carazo, J. M. Sorzano, C. O.S. Cryo-electron microscop macromolecul near-atomic resolution Scipion Informática Cryo-electron microscopy has become one of the most important tools in biological research to reveal the structural information of macromolecules at near-atomic resolution. In single-particle analysis, the vitrified sample is imaged by an electron beam and the detectors at the end of the microscope column produce movies of that sample. These movies contain thousands of images of identical particles in random orientations. The data need to go through an image processing workflow with multiple steps to obtain the final 3D reconstructed volume. The goal of the image processing workflow is to identify the acquisition parameters to be able to reconstruct the specimen under study. Scipion provides all the tools to create this workflow using several image processing packages in an integrative framework, also allowing the traceability of the results. In this article the whole image processing workflow in Scipion is presented and discussed with data coming from a real test case, giving all the details necessary to go from the movies obtained by the microscope to a high resolution final 3D reconstruction. Also, the power of using consensus tools that allow combining methods, and confirming results along every step of the workflow, improving the accuracy of the obtained results, is discussed. MYJoVE Corporation http://hdl.handle.net/10486/697520 https://dx.doi.org/10.3791/62261 |
| spellingShingle | Cryo-EM and single-particle analysis with Scipion Jiménez-Moreno, A. Cryo-electron microscop macromolecul near-atomic resolution Scipion Informática |
| title | Cryo-EM and single-particle analysis with Scipion |
| title_full | Cryo-EM and single-particle analysis with Scipion |
| title_fullStr | Cryo-EM and single-particle analysis with Scipion |
| title_full_unstemmed | Cryo-EM and single-particle analysis with Scipion |
| title_short | Cryo-EM and single-particle analysis with Scipion |
| title_sort | Cryo-EM and single-particle analysis with Scipion |
| topic | Cryo-electron microscop macromolecul near-atomic resolution Scipion Informática |
| topic_facet | Cryo-electron microscop macromolecul near-atomic resolution Scipion Informática |
| url | http://hdl.handle.net/10486/697520 https://dx.doi.org/10.3791/62261 |