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Cryogenic electron microscopy and single-particle analysis
About 20 years ago, the first three-dimensional (3D) reconstructions at subnanometer (< 10-
Å) resolution of an icosahedral virus assembly were obtained by cryogenic electron …
Å) resolution of an icosahedral virus assembly were obtained by cryogenic electron …
Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization
SHW Scheres, H Gao, M Valle, GT Herman… - Nature …, 2007 - nature.com
Although three-dimensional electron microscopy (3D-EM) permits structural characterization
of macromolecular assemblies in distinct functional states, the inability to classify projections …
of macromolecular assemblies in distinct functional states, the inability to classify projections …
An introduction to maximum-likelihood methods in cryo-EM
FJ Sigworth, PC Doerschuk, JM Carazo… - Methods in …, 2010 - Elsevier
The maximum-likelihood method provides a powerful approach to many problems in cryo-
electron microscopy (cryo-EM) image processing. This contribution aims to provide an …
electron microscopy (cryo-EM) image processing. This contribution aims to provide an …
Classification of structural heterogeneity by maximum-likelihood methods
SHW Scheres - Methods in enzymology, 2010 - Elsevier
With the advent of computationally feasible approaches to maximum-likelihood (ML) image
processing for cryo-electron microscopy, these methods have proven particularly useful in …
processing for cryo-electron microscopy, these methods have proven particularly useful in …
Modeling experimental image formation for likelihood-based classification of electron microscopy data
SHW Scheres, R Núñez-Ramírez, Y Gómez-Llorente… - Structure, 2007 - cell.com
The coexistence of multiple distinct structural states often obstructs the application of three-
dimensional cryo-electron microscopy to large macromolecular complexes. Maximum …
dimensional cryo-electron microscopy to large macromolecular complexes. Maximum …
[HTML][HTML] In vivo assembly of an archaeal virus studied with whole-cell electron cryotomography
We applied whole-cell electron cryotomography to the archaeon Sulfolobus infected by
Sulfolobus turreted icosahedral virus (STIV), which belongs to the PRD1-Adeno lineage of …
Sulfolobus turreted icosahedral virus (STIV), which belongs to the PRD1-Adeno lineage of …
Dynamics in cryo EM reconstructions visualized with maximum-likelihood derived variance maps
Q Wang, T Matsui, T Domitrovic, Y Zheng… - Journal of structural …, 2013 - Elsevier
CryoEM data capture the dynamic character associated with biological macromolecular
assemblies by preserving the various conformations of the individual specimens at the …
assemblies by preserving the various conformations of the individual specimens at the …
Unified 3-D structure and projection orientation refinement using quasi-Newton algorithm
C Yang, EG Ng, PA Penczek - Journal of structural biology, 2005 - Elsevier
We describe an algorithm for simultaneous refinement of a three-dimensional (3-D) density
map and of the orientation parameters of two-dimensional (2-D) projections that are used to …
map and of the orientation parameters of two-dimensional (2-D) projections that are used to …
An adaptive expectation–maximization algorithm with GPU implementation for electron cryomicroscopy
HD Tagare, A Barthel, FJ Sigworth - Journal of structural biology, 2010 - Elsevier
Maximum-likelihood (ML) estimation has very desirable properties for reconstructing 3D
volumes from noisy cryo-EM images of single macromolecular particles. Current …
volumes from noisy cryo-EM images of single macromolecular particles. Current …
Maximum likelihood refinement of electron microscopy data with normalization errors
SHW Scheres, M Valle, P Grob, E Nogales… - Journal of structural …, 2009 - Elsevier
Commonly employed data models for maximum likelihood refinement of electron
microscopy images behave poorly in the presence of normalization errors. Small variations …
microscopy images behave poorly in the presence of normalization errors. Small variations …