Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis

Abstract 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...

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Autores principales:	J. Vargas, R. Melero, J. Gómez-Blanco, J. M. Carazo, C. O. S. Sorzano
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/208ac4f5b9214c67b19c4936d2209615
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spelling	oai:doaj.org-article:208ac4f5b9214c67b19c4936d22096152021-12-02T11:40:34ZQuantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis10.1038/s41598-017-06526-z2045-2322https://doaj.org/article/208ac4f5b9214c67b19c4936d22096152017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-06526-zhttps://doaj.org/toc/2045-2322Abstract 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.J. VargasR. MeleroJ. Gómez-BlancoJ. M. CarazoC. O. S. SorzanoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-14 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q J. Vargas R. Melero J. Gómez-Blanco J. M. Carazo C. O. S. Sorzano Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis
description	Abstract 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	article
author	J. Vargas R. Melero J. Gómez-Blanco J. M. Carazo C. O. S. Sorzano
author_facet	J. Vargas R. Melero J. Gómez-Blanco J. M. Carazo C. O. S. Sorzano
author_sort	J. Vargas
title	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_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_sort	quantitative analysis of 3d alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/208ac4f5b9214c67b19c4936d2209615
work_keys_str_mv	AT jvargas quantitativeanalysisof3dalignmentqualityitsimpactonsoftvalidationparticlepruningandhomogeneityanalysis AT rmelero quantitativeanalysisof3dalignmentqualityitsimpactonsoftvalidationparticlepruningandhomogeneityanalysis AT jgomezblanco quantitativeanalysisof3dalignmentqualityitsimpactonsoftvalidationparticlepruningandhomogeneityanalysis AT jmcarazo quantitativeanalysisof3dalignmentqualityitsimpactonsoftvalidationparticlepruningandhomogeneityanalysis AT cossorzano quantitativeanalysisof3dalignmentqualityitsimpactonsoftvalidationparticlepruningandhomogeneityanalysis
_version_	1718395568145825792

Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis

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