title: Denoising of high-resolution single-particle electron-microscopy density maps by their approximation using three-dimensional Gaussian functions.
abstract: Cryo-electron microscopy (cryo-EM) of frozen-hydrated preparations of isolated macromolecular complexes is the method of choice to obtain the structure of complexes that cannot be easily studied by other experimental methods due to their flexibility or large size. An increasing number of macromolecular structures are currently being obtained at subnanometer resolution but the interpretation of structural details in such EM-derived maps is often difficult because of noise at these high-frequency signal components that reduces their contrast. In this paper, we show that the method for EM density-map approximation using Gaussian functions can be used for denoising of single-particle EM maps of high (typically subnanometer) resolution. We show its denoising performance using simulated and experimental EM density maps of several complexes.
authors.affiliation: IMPMC, Sorbonne Universités - CNRS UMR 7590, UPMC Univ Paris 6, MNHN, IRD UMR 206, 75005 Paris, France. Electronic address: Slavica.Jonic@impmc.upmc.fr.
authors.forename: S
authors.initials: S
authors.lastname: Jonić
authors.affiliation: Biocomputing Unit, Centro Nacional de Biotecnología - CSIC, Campus de Cantoblanco, Darwin 3, 28049 Madrid, Spain.
authors.forename: J
authors.initials: J
authors.lastname: Vargas
authors.affiliation: Biocomputing Unit, Centro Nacional de Biotecnología - CSIC, Campus de Cantoblanco, Darwin 3, 28049 Madrid, Spain.
authors.forename: R
authors.initials: R
authors.lastname: Melero
authors.affiliation: Biocomputing Unit, Centro Nacional de Biotecnología - CSIC, Campus de Cantoblanco, Darwin 3, 28049 Madrid, Spain.
authors.forename: J
authors.initials: J
authors.lastname: Gómez-Blanco
authors.affiliation: Biocomputing Unit, Centro Nacional de Biotecnología - CSIC, Campus de Cantoblanco, Darwin 3, 28049 Madrid, Spain.
authors.forename: J M
authors.initials: JM
authors.lastname: Carazo
authors.affiliation: Biocomputing Unit, Centro Nacional de Biotecnología - CSIC, Campus de Cantoblanco, Darwin 3, 28049 Madrid, Spain.
authors.forename: C O S
authors.initials: CO
authors.lastname: Sorzano
mesh_terms: D020285:Cryoelectron Microscopy / Q000379:methods / Q000592:standards*; D046911:Macromolecular Substances / Q000737:chemistry*; D015394:Molecular Structure; D016011:Normal Distribution; D011487:Protein Conformation; D054658:Ribosome Subunits, Large / Q000737:chemistry; D059629:Signal-To-Noise Ratio; D001616:beta-Galactosidase / Q000737:chemistry
chemical_list: D046911:Macromolecular Substances; D001616:beta-Galactosidase
keywords: Denoising; Electron microscopy density map; Gaussian functions; Macromolecular complexes; Single particle analysis; Structure