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E-raamat: Computational Methods for Three-Dimensional Microscopy Reconstruction

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Approaches to the recovery of three-dimensional information on a biological object, which are often formulated or implemented initially in an intuitive way, are concisely described here based on physical models of the object and the image-formation process. Both three-dimensional electron microscopy and X-ray tomography can be captured in the same mathematical framework, leading to closely-related computational approaches, but the methodologies differ in detail and hence pose different challenges. The editors of this volume, Gabor T. Herman and Joachim Frank, are experts in the respective methodologies and present research at the forefront of biological imaging and structural biology.

Computational Methods for Three-Dimensional Microscopy Reconstruction will serve as a useful resource for scholars interested in the development of computational methods for structural biology and cell biology, particularly in the area of 3D imaging and modeling.

1 Introduction
1(6)
Joachim Frank
Gabor T. Herman
2 Interchanging Geometry Conventions in 3DEM: Mathematical Context for the Development of Standards
7(36)
C.O.S. Sorzano
R. Marabini
J. Vargas
J. Oton
J. Cuenca-Alba
A. Quintana
J.M. de la Rosa-Trevin
J.M. Carazo
3 Fully Automated Particle Selection and Verification in Single-Particle Cryo-EM
43(24)
Robert Langlois
Jordan T. Ash
Jesper Pallesen
Joachim Frank
4 Quantitative Analysis in Iterative Classification Schemes for Cryo-EM Application
67(30)
Bingxin Shen
Bo Chen
Hstau Liao
Joachim Frank
5 High-resolution Cryo-EM Structure of the Trypanosoma brucei Ribosome: A Case Study
97(36)
Amedee des Georges
Yaser Hashem
Sarah N. Buss
Fabrice Jossinet
Qin Zhang
Hstau Y. Liao
Jie Fu
Amy Jobe
Robert A. Grassucci
Robert Langlois
Chandrajit Bajaj
Eric Westhof
Susan Madison-Antenucci
Joachim Frank
6 Computational Methods for Electron Tomography of Influenza Virus
133(24)
Younes Benkarroum
Paul Gottlieb
Al Katz
Stuart W. Rowland
Doris Bucher
Gabor T. Herman
7 Reconstruction from Microscopic Projections with Defocus-Gradient and Attenuation Effects
157(30)
Joanna Klukowska
Gabor T. Herman
8 Soft X-Ray Tomography Imaging for Biological Samples
187(34)
J. Oton
C.O.S. Sorzano
F.J. Chichon
J.L. Carrascosa
J.M. Carazo
R. Marabini
9 Using Component Trees to Explore Biological Structures
221(36)
Lucas M. Oliveira
T. Yung Kong
Gabor T. Herman
Index 257