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Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis
Single Particle Analysis using cryo-electron microscopy is a structural biology technique aimed at capturing the three-dimensional (3D) conformation of biological macromolecules. Projection images used to construct the 3D density map are characterized by a very low signal-to-noise ratio to minimize...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5524947/ https://www.ncbi.nlm.nih.gov/pubmed/28740215 http://dx.doi.org/10.1038/s41598-017-06526-z |
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author | Vargas, J. Melero, R. Gómez-Blanco, J. Carazo, J. M. Sorzano, C. O. S. |
author_facet | Vargas, J. Melero, R. Gómez-Blanco, J. Carazo, J. M. Sorzano, C. O. S. |
author_sort | Vargas, J. |
collection | PubMed |
description | Single Particle Analysis using cryo-electron microscopy is a structural biology technique aimed at capturing the three-dimensional (3D) conformation of biological macromolecules. Projection images used to construct the 3D density map are characterized by a very low signal-to-noise ratio to minimize radiation damage in the samples. As a consequence, the 3D image alignment process is a challenging and error prone task which usually determines the success or failure of obtaining a high quality map. In this work, we present an approach able to quantify the alignment precision and accuracy of the 3D alignment process, which is then being used to help the reconstruction process in a number of ways, such as: (1) Providing quality indicators of the macromolecular map for soft validation, (2) Assessing the degree of homogeneity of the sample and, (3), Selecting subsets of representative images. We present experimental results in which the quality of the finally obtained 3D maps is clearly improved. |
format | Online Article Text |
id | pubmed-5524947 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-55249472017-07-26 Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis Vargas, J. Melero, R. Gómez-Blanco, J. Carazo, J. M. Sorzano, C. O. S. Sci Rep Article Single Particle Analysis using cryo-electron microscopy is a structural biology technique aimed at capturing the three-dimensional (3D) conformation of biological macromolecules. Projection images used to construct the 3D density map are characterized by a very low signal-to-noise ratio to minimize radiation damage in the samples. As a consequence, the 3D image alignment process is a challenging and error prone task which usually determines the success or failure of obtaining a high quality map. In this work, we present an approach able to quantify the alignment precision and accuracy of the 3D alignment process, which is then being used to help the reconstruction process in a number of ways, such as: (1) Providing quality indicators of the macromolecular map for soft validation, (2) Assessing the degree of homogeneity of the sample and, (3), Selecting subsets of representative images. We present experimental results in which the quality of the finally obtained 3D maps is clearly improved. Nature Publishing Group UK 2017-07-24 /pmc/articles/PMC5524947/ /pubmed/28740215 http://dx.doi.org/10.1038/s41598-017-06526-z Text en © The Author(s) 2017 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 Vargas, J. Melero, R. Gómez-Blanco, J. Carazo, J. M. Sorzano, C. O. S. Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
title | Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
title_full | Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
title_fullStr | Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
title_full_unstemmed | Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
title_short | Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
title_sort | quantitative analysis of 3d alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5524947/ https://www.ncbi.nlm.nih.gov/pubmed/28740215 http://dx.doi.org/10.1038/s41598-017-06526-z |
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