Classification of cryo-electron sub-tomograms using constrained correlation. F�rster, F., Pruggnaller, S., Seybert, A., & Frangakis, A., S. J Struct Biol, 161(3):276-286, 3, 2008. ![Classification of cryo-electron sub-tomograms using constrained correlation. [link]](https://bibbase.org/img/filetypes/link.svg "link")
Website abstract bibtex Cryo-electron tomography (CET) is currently the only three-dimensional
imaging technique capable of visualizing macromolecules in their
cellular context at close-to-native conditions with a resolution
in the nanometer range. An important component for the analysis of
the data is their classification, which should discriminate among
various macromolecules, conformational changes and interaction partners.
Missing structure factors, typically in a wedge-shaped region in
Fourier space if single-axis tilting is performed, hamper classification
of cryo-electron tomographic data. Here, we describe a classification
method for three-dimensional (3D) sub-tomograms extracted from cryo-electron
tomograms, which takes the missing wedge into account and provides
reliable results. The similarity of the individually aligned sub-tomograms
is scored by constrained correlation. Subsequently, they are clustered
based on their pairwise correlation values. In order to demonstrate
the feasibility of this approach, we apply the proposed method to
simulated tomographic data of the chaperone thermosome in different
conformations. By comparison of the principal components of the resulting
matrix we show that the proposed metric is significantly less prone
to the orientation of the missing wedge compared to the unconstrained
correlation. Moreover, we apply our classification method to an experimental
dataset of GroEL with and without GroES, where we achieve a distinct
discrimination between the putative GroEL and GroEL/GroES complexes.
@article{
title = {Classification of cryo-electron sub-tomograms using constrained correlation.},
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year = {2008},
identifiers = {[object Object]},
keywords = {Algorithms; Cryoelectron Microscopy; GroEL Protein},
pages = {276-286},
volume = {161},
websites = {http://dx.doi.org/10.1016/j.jsb.2007.07.006},
month = {3},
institution = {Max-Planck-Institut f�r Biochemie, Molekulare Strukturbiologie, Am Klopferspitz 18, 82152 Martinsried, Germany. frido@salilab.org},
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last_modified = {2017-03-14T11:02:08.776Z},
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abstract = {Cryo-electron tomography (CET) is currently the only three-dimensional
imaging technique capable of visualizing macromolecules in their
cellular context at close-to-native conditions with a resolution
in the nanometer range. An important component for the analysis of
the data is their classification, which should discriminate among
various macromolecules, conformational changes and interaction partners.
Missing structure factors, typically in a wedge-shaped region in
Fourier space if single-axis tilting is performed, hamper classification
of cryo-electron tomographic data. Here, we describe a classification
method for three-dimensional (3D) sub-tomograms extracted from cryo-electron
tomograms, which takes the missing wedge into account and provides
reliable results. The similarity of the individually aligned sub-tomograms
is scored by constrained correlation. Subsequently, they are clustered
based on their pairwise correlation values. In order to demonstrate
the feasibility of this approach, we apply the proposed method to
simulated tomographic data of the chaperone thermosome in different
conformations. By comparison of the principal components of the resulting
matrix we show that the proposed metric is significantly less prone
to the orientation of the missing wedge compared to the unconstrained
correlation. Moreover, we apply our classification method to an experimental
dataset of GroEL with and without GroES, where we achieve a distinct
discrimination between the putative GroEL and GroEL/GroES complexes.},
bibtype = {article},
author = {F�rster, Friedrich and Pruggnaller, Sabine and Seybert, Anja and Frangakis, Achilleas S},
journal = {J Struct Biol},
number = {3}
}
Downloads: 0
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An important component for the analysis of\nthe data is their classification, which should discriminate among\nvarious macromolecules, conformational changes and interaction partners.\nMissing structure factors, typically in a wedge-shaped region in\nFourier space if single-axis tilting is performed, hamper classification\nof cryo-electron tomographic data. Here, we describe a classification\nmethod for three-dimensional (3D) sub-tomograms extracted from cryo-electron\ntomograms, which takes the missing wedge into account and provides\nreliable results. The similarity of the individually aligned sub-tomograms\nis scored by constrained correlation. Subsequently, they are clustered\nbased on their pairwise correlation values. In order to demonstrate\nthe feasibility of this approach, we apply the proposed method to\nsimulated tomographic data of the chaperone thermosome in different\nconformations. 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