Literature DB >> 29395788

MonoRes: Automatic and Accurate Estimation of Local Resolution for Electron Microscopy Maps.

Jose Luis Vilas1, Josué Gómez-Blanco2, Pablo Conesa2, Roberto Melero2, José Miguel de la Rosa-Trevín3, Joaquin Otón2, Jesús Cuenca2, Roberto Marabini4, José María Carazo5, Javier Vargas6, Carlos Oscar S Sorzano7.   

Abstract

Since the beginning of electron microscopy, resolution has been a critical parameter. In this article, we propose a fully automatic, accurate method for determining the local resolution of a 3D map (MonoRes). The foundation of this algorithm is an extension of the concept of analytic signal, termed monogenic signal. The map is filtered at different frequencies and the amplitude of the monogenic signal is calculated, after which a criterion is applied to determine the resolution at each voxel. MonoRes is fully automatic without compulsory user parameters, with great accuracy in all tests, and is computationally more rapid than existing methods in the field. In addition, MonoRes offers the option of local filtering of the original map based on the calculated local resolution.
Copyright © 2018 Elsevier Ltd. All rights reserved.

Keywords:  electron microscopy; local resolution; single particle analysis

Mesh:

Year:  2018        PMID: 29395788     DOI: 10.1016/j.str.2017.12.018

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  74 in total

1.  Structure and function at the lipid-protein interface of a pentameric ligand-gated ion channel.

Authors:  Pramod Kumar; Gisela D Cymes; Claudio Grosman
Journal:  Proc Natl Acad Sci U S A       Date:  2021-06-08       Impact factor: 11.205

2.  Cryo_fit: Democratization of flexible fitting for cryo-EM.

Authors:  Doo Nam Kim; Nigel W Moriarty; Serdal Kirmizialtin; Pavel V Afonine; Billy Poon; Oleg V Sobolev; Paul D Adams; Karissa Sanbonmatsu
Journal:  J Struct Biol       Date:  2019-07-03       Impact factor: 2.867

Review 3.  Challenges and opportunities in cryo-EM single-particle analysis.

Authors:  Dmitry Lyumkis
Journal:  J Biol Chem       Date:  2019-02-25       Impact factor: 5.157

4.  Structure of the Human Core Centromeric Nucleosome Complex.

Authors:  Praveen Kumar Allu; Jennine M Dawicki-McKenna; Trevor Van Eeuwen; Moriya Slavin; Merav Braitbard; Chen Xu; Nir Kalisman; Kenji Murakami; Ben E Black
Journal:  Curr Biol       Date:  2019-07-25       Impact factor: 10.834

Review 5.  Local resolution estimates of cryoEM reconstructions.

Authors:  J L Vilas; J B Heymann; H D Tagare; E Ramirez-Aportela; J M Carazo; Cos Sorzano
Journal:  Curr Opin Struct Biol       Date:  2020-07-07       Impact factor: 6.809

6.  Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods.

Authors:  Carlos Oscar S Sorzano; Amaya Jiménez-Moreno; David Maluenda; Erney Ramírez-Aportela; Marta Martínez; Ana Cuervo; Robert Melero; Jose Javier Conesa; Ruben Sánchez-García; David Strelak; Jiri Filipovic; Estrella Fernández-Giménez; Federico de Isidro-Gómez; David Herreros; Pablo Conesa; Laura Del Caño; Yunior Fonseca; Jorge Jiménez de la Morena; Jose Ramon Macías; Patricia Losana; Roberto Marabini; Jose-Maria Carazo
Journal:  Methods Mol Biol       Date:  2021

7.  Evaluating Local and Directional Resolution of Cryo-EM Density Maps.

Authors:  Sriram Aiyer; Cheng Zhang; Philp R Baldwin; Dmitry Lyumkis
Journal:  Methods Mol Biol       Date:  2021

8.  Frozen-hydrated chromatin from metaphase chromosomes has an interdigitated multilayer structure.

Authors:  Andrea Chicano; Eva Crosas; Joaquín Otón; Roberto Melero; Benjamin D Engel; Joan-Ramon Daban
Journal:  EMBO J       Date:  2019-01-04       Impact factor: 11.598

9.  Porcine Circovirus 2 Uses a Multitude of Weak Binding Sites To Interact with Heparan Sulfate, and the Interactions Do Not Follow the Symmetry of the Capsid.

Authors:  Sonali Dhindwal; Bryant Avila; Shanshan Feng; Reza Khayat
Journal:  J Virol       Date:  2019-03-05       Impact factor: 5.103

10.  Structural basis for the inhibition of cGAS by nucleosomes.

Authors:  Tomoya Kujirai; Christian Zierhut; Yoshimasa Takizawa; Ryan Kim; Lumi Negishi; Nobuki Uruma; Seiya Hirai; Hironori Funabiki; Hitoshi Kurumizaka
Journal:  Science       Date:  2020-09-10       Impact factor: 47.728

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