About: Local computational methods to improve the interpretability and analysis of cryo-EM maps

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About: Local computational methods to improve the interpretability and analysis of cryo-EM maps Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Local computational methods to improve the interpretability and analysis of cryo-EM maps
Creator	Khalifa, A Adinarayanan, S Bui, K Gomez-Blanco, J Kaur, S Mclellan, J Sanchez-Garcia, R Vargas, J Wrapp, D
Source	BioRxiv
abstract	Cryo-electron microscopy (cryo-EM) maps usually show heterogeneous distributions of B-factors and electron density occupancies and are typically B-factor sharpened to improve their contrast and interpretability at high-resolutions. However, ‘over-sharpening’ due to the application of a single global B-factor can distort processed maps causing connected densities to appear broken and disconnected. This issue limits the interpretability of cryo-EM maps, i.e. ab initio modelling. In this work, we propose 1) approaches to enhance high-resolution features of cryo-EM maps, while preventing map distortions and 2) methods to obtain local B-factors and electron density occupancy maps. These algorithms have as common link the use of the spiral phase transformation and are called LocSpiral, LocBSharpen, LocBFactor and LocOccupancy. Our results, which include improved maps of recent SARS-CoV-2 structures, show that our methods can improve the interpretability and analysis of obtained reconstructions.
has issue date	2020-06-19(xsd:dateTime)
bibo:doi	10.1101/2020.05.11.088013
has license	biorxiv
sha1sum (hex)	fb1e3dc1d7dbed17a744fc0918d03d52e336444a
schema:url	https://doi.org/10.1101/2020.05.11.088013
resource representing a document's title	Local computational methods to improve the interpretability and analysis of cryo-EM maps
schema:publication	bioRxiv
resource representing a document's body	covid:fb1e3dc1d7dbed17a744fc0918d03d52e336444a#body_text
is schema:about of	named entity 'DISTORT' named entity 'B-factor' named entity 'B-factor' named entity 'cryo-EM' named entity 'B-factor' named entity 'B-factor' named entity 'convolution' named entity 'PDB' named entity 'maximum resolution' named entity 'black line' named entity 'B-factor' named entity 'B-factor' named entity '50S' named entity 'FSC' named entity 'B-factor' named entity 'secondary structure' named entity 'cosine' named entity 'cryo-EM' named entity 'overfitting' named entity 'nonlinear' named entity 'X-ray' named entity 'global map' named entity '50S' named entity 'amplitude' named entity 'B-factor' named entity 'high resolution' named entity 'quantile' named entity 'Fourier operator' named entity 'cryo-EM' named entity 'electron microscope' named entity 'cryo-EM' named entity 'Ramón y Cajal' named entity 'Fourier Shell Correlation' named entity 'spliceosome' named entity 'amplitude' named entity 'high-resolution' named entity 'X-ray crystallography' named entity 'scattering' named entity 'spliceosomal' named entity 'heterogeneity' named entity 'ectodomain' named entity 'B-factor' named entity '50S ribosome' named entity 'macromolecule' named entity 'B-factor' named entity 'atomic models' named entity 'PDB' named entity 'apoferritin' named entity 'SNR' named entity 'NSERC' named entity 'damping' named entity 'high resolution' named entity 'crosscorrelation' named entity 'cryo-EM' named entity 'amplitude' named entity 'cryo-EM' named entity 'heterogeneity' named entity 'amplitude' named entity 'glycan' named entity 'Bragg peaks' named entity 'cryo-EM' named entity 'TRP channel' named entity 'heterogeneity' named entity 'PDB' named entity 'measured values' named entity 'secondary structure' named entity 'lipid' named entity 'ribosome' named entity 'macromolecular complexes' named entity 'cryo-EM' named entity 'spliceosomal' named entity 'cryo-EM' named entity 'amplitude' named entity 'macromolecule' named entity 'B-factor' named entity 'SARS-CoV-2'

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