DOI: 10.1016/j.jsb.2010.01.007. Automated multi-model reconstruction from single-particle electron microscopy data

Automated multi-model reconstruction from single-particle electron microscopy data

10.1016/j.jsb.2010.01.007

Crossref journal-article

Elsevier BV

Journal of Structural Biology (78)

Bibliography

Shatsky, M., Hall, R. J., Nogales, E., Malik, J., & Brenner, S. E. (2010). Automated multi-model reconstruction from single-particle electron microscopy data. Journal of Structural Biology, 170(1), 98â108.

Authors 5

Maxim Shatsky (first)
Richard J. Hall (additional)
Eva Nogales (additional)
Jitendra Malik (additional)
Steven E. Brenner (additional)

References 33 Referenced 34

10.1021/bi00214a004 / Biochemistry / Crystal structures of the Klenow fragment of DNA polymerase I complexed with deoxynucleoside triphosphate and pyrophosphate by Beese (1993)
10.1364/JOSAA.7.000601 / J. Opt. Soc. Am. A / Classification of image data in conjugate representation spaces by Borland (1990)
10.1016/j.str.2004.01.015 / Structure / Experimental verification of conformational variation of human fatty acid synthase as predicted by normal mode analysis by Brink (2004)
10.1016/j.jsb.2004.04.004 / J. Struct. Biol. / Use of negative stain and single-particle image processing to explore dynamic properties of flexible macromolecules by Burgess (2004)
10.1038/19999 / Nature / Structural basis for initiation of transcription from an RNA polymerase–promoter complex by Cheetham (1999)
10.1016/j.jsb.2007.11.007 / J. Struct. Biol. / Detection and separation of heterogeneity in molecular complexes by statistical analysis of their two-dimensional projections by Elad (2008)
10.1146/annurev.biophys.31.082901.134202 / Annu. Rev. Biophys. Biomol. Struct. / Single-particle imaging of macromolecules by cryo-electron microscopy by Frank (2002)
{'key': '10.1016/j.jsb.2010.01.007_bib8', 'series-title': 'Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State', 'author': 'Frank', 'year': '2006'} / Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State by Frank (2006)
10.1016/j.jsb.2006.06.012 / J. Struct. Biol. / Unsupervised classification of single particles by cluster tracking in multi-dimensional space by Fu (2007)
10.1016/S0092-8674(03)00427-6 / Cell / Study of the structural dynamics of the E. coli 70S ribosome using real-space refinement by Gao (2003)
10.1126/science.1059495 / Science / Structural basis of transcription: an RNA polymerase II elongation complex at 33 a resolution by Gnatt (2001)
10.1016/j.jsb.2007.05.007 / J. Struct. Biol. / Cross-correlation of common lines: a novel approach for single-particle reconstruction of a structure containing a flexible domain by Hall (2007)
10.1016/j.ultramic.2007.05.005 / Ultramicroscopy / Classification of heterogeneous electron microscopic projections into homogeneous subsets by Herman (2008)
10.1016/j.str.2006.09.011 / Structure / Molecular architecture and conformational flexibility of human RNA polymerase II by Kostek (2006)
10.1146/annurev.biophys.36.040306.132742 / Ann. Rev. Biophys. Biomol. Struct. / Visualizing flexibility at molecular resolution: analysis of heterogeneity in single-particle electron microscopy reconstructions by Leschziner (2007)
10.1023/A:1011174803800 / Int. J. Comput. Vis. / Contour and texture analysis for image segmentation by Malik (2001)
{'key': '10.1016/j.jsb.2010.01.007_bib17', 'article-title': 'On spectral clustering: analysis and an algorithm', 'volume': '14', 'author': 'Ng', 'year': '2001', 'journal-title': 'Adv. Neural Inform. Process. Syst.'} / Adv. Neural Inform. Process. Syst. / On spectral clustering: analysis and an algorithm by Ng (2001)
10.1073/pnas.96.15.8420 / Proc. Natl. Acad. Sci. / Three-dimensional structure of low density lipoproteins by electron cryomicroscopy by Orlova (1999)
10.1016/j.jsb.2005.12.013 / J. Struct. Biol. / A method of focused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation by Penczek (2006)
10.1038/nature01224 / Nature / A cryo-electron microscopic study of ribosome-bound termination factor RF2 by Rawat (2003)
10.1006/jsbi.2001.4374 / J. Struct. Biol. / Structures of unliganded and ATP-bound states of the Escherichia coli chaperonin GroEL by cryoelectron microscopy by Roseman (2001)
10.1038/nature01513 / Nature / From words to literature in structural proteomics by Sali (2003)
10.1038/nmeth992 / Nature Methods / Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization by Scheres (2007)
10.1016/j.jsb.2008.12.008 / J. Struct. Biol. / A method for the alignment of heterogeneous macromolecules from electron microscopy by Shatsky (2009)
10.1109/34.868688 / IEEE Trans. Pattern Anal. Mach. Intell. / Normalized cuts and image segmentation by Shi (2000)
10.1126/science.1118977 / Science / Structural roles for human translation factor eIF3 in initiation of protein synthesis by Siridechadilok (2005)
10.1016/S0092-8674(00)80925-3 / Cell / Mechanical devices of the spliceosome: motors, clocks, springs, and things by Staley (1998)
10.1016/S0968-0004(02)02176-X / Trends Biochem. Sci. / New electron microscopy database and deposition system by Tagari (2002)
10.1038/nature01129 / Nature / Structure of a T7 RNA polymerase elongation complex at 2.9Å resolution by Tahirov (2002)
10.1016/0304-3991(87)90078-7 / Ultramicroscopy / Angular reconstitution: a posteriori assignment of projection directions for 3D reconstruction by van Heel (1987)
10.1017/S0033583500003644 / Quart. Rev. Biophys. / Single-particle electron cryo-microscopy: towards atomic resolution by van Heel (2001)
10.1016/j.jmb.2003.12.015 / J. Mol. Biol. / Recognition and separation of single particles with size variation by statistical analysis of their images by White (2004)
10.1016/S0022-2836(02)00711-8 / J. Mol. Biol. / Flexibility of the rings: structural asymmetry in the DnaB hexameric helicase by Yang (2002)

Dates

Type	When
Created	15 years, 7 months ago (Jan. 19, 2010, 5:48 a.m.)
Deposited	5 years, 3 months ago (May 6, 2020, 2:49 p.m.)
Indexed	1 year, 3 months ago (May 1, 2024, 6:17 a.m.)
Issued	15 years, 4 months ago (April 1, 2010)
Published	15 years, 4 months ago (April 1, 2010)
Published Print	15 years, 4 months ago (April 1, 2010)

Funders 3

US Department of Energy
Awards1
1. DE-AC02-05CH11231
Lawrence Berkeley National Laboratory 10.13039/100006235
Region: Americas
gov (Research institutes and centers)
Labels6
1. Berkeley Lab
2. Lawrence Berkeley National Lab
3. Lawrence Berkeley Lab
4. Lawrence Berkeley National Laboratory – Berkeley Lab
5. Lawrence Berkeley
6. LBNL
Awards1
1. R01 GM63072
National Institutes of Health NIGMS 10.13039/100000002 National Institutes of Health
Region: Americas
gov (National government)
Labels3
1. Institutos Nacionales de la Salud
2. US National Institutes of Health
3. NIH
Awards1
1. RPG0039

BibTeX

@article{Shatsky_2010, title={Automated multi-model reconstruction from single-particle electron microscopy data}, volume={170}, ISSN={1047-8477}, url={http://dx.doi.org/10.1016/j.jsb.2010.01.007}, DOI={10.1016/j.jsb.2010.01.007}, number={1}, journal={Journal of Structural Biology}, publisher={Elsevier BV}, author={Shatsky, Maxim and Hall, Richard J. and Nogales, Eva and Malik, Jitendra and Brenner, Steven E.}, year={2010}, month=apr, pages={98–108} }

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