Computational Challenges in High-resolution Cryo-electron Microscopy
Author: Peter Anthony Leong
Publisher:
Published: 2009
Total Pages: 214
ISBN-13:
DOWNLOAD EBOOKRead and Download eBook Full
Author: Peter Anthony Leong
Publisher:
Published: 2009
Total Pages: 214
ISBN-13:
DOWNLOAD EBOOKAuthor: Gabor T. Herman
Publisher: Springer Science & Business Media
Published: 2014-01-29
Total Pages: 275
ISBN-13: 1461495210
DOWNLOAD EBOOKApproaches 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.
Author: Felix Weis
Publisher: Frontiers Media SA
Published: 2022-12-05
Total Pages: 120
ISBN-13: 283250860X
DOWNLOAD EBOOKAuthor: Joachim Frank
Publisher: World Scientific Publishing Company
Published: 2017-12-31
Total Pages: 0
ISBN-13: 9789813234857
DOWNLOAD EBOOKThe book reproduces 55 of more than 300 articles written by the author, representing milestones in methods development of single-particle cryo-EM as well as important results obtained by this technique in the study of biological macromolecules and their interactions. Importantly, neither symmetries nor ordered arrangements (as in two-dimensional crystals, helical assemblies, icosahedral viruses) are required. Although the biological applications are mainly in the area of ribosome structure and function, the elucidation of membrane channel structures and their activation and gating mechanisms are represented, as well. The book is introduced by a commentary that explains the original development of concepts, describes the contributions of the author's colleagues and students, and shows how challenges were overcome as the technique matured. Along the way, the ribosome served as an example for a macromolecule with intricate structure and conformational dynamics that pose challenges for three-dimensional visualization. Toward the end of the book -- bringing us to the present time -- molecular structures with near-atomic resolution are presented, and a novel type of computational analysis, manifold embedding, is introduced. Single-particle cryo-EM is currently revolutionizing structural biology, presenting a powerful alternative to X-ray crystallography as a means to solve the structure of biological macromolecules. The book presents in one place a number of articles containing key advances in mathematical and computational methods leading up to the present time. Secondly, the development of the technique over the years is reflected by ever-expanding discoveries in the field of ribosome structure and function. Thirdly, as all histories of ideas, the history of concepts pertaining to this new method of visualization is fascinating all in itself.
Author: Lukas Schulte
Publisher:
Published: 2018
Total Pages:
ISBN-13:
DOWNLOAD EBOOKLarge macromolecular protein complexes play an important role in the quest of un- derstanding life at a molecular level. For this endeavor, the highly-resolved 3D structure of a large complex and its changes, which are called conformational dy- namics, are of high interest due to their close relation to biological function. A pop- ular method to gain access to this information is cryo-electron microscopy. Here, biological samples are vitrified in their native buffer conditions and then im- aged in a transmission electron microscope. The large amount of recorded noisy images, called microgra...
Author: Earl J. Kirkland
Publisher: Springer Nature
Published: 2020-03-09
Total Pages: 357
ISBN-13: 3030332608
DOWNLOAD EBOOKThis updated and revised edition of a classic work provides a summary of methods for numerical computation of high resolution conventional and scanning transmission electron microscope images. At the limits of resolution, image artifacts due to the instrument and the specimen interaction can complicate image interpretation. Image calculations can help the user to interpret and understand high resolution information in recorded electron micrographs. The book contains expanded sections on aberration correction, including a detailed discussion of higher order (multipole) aberrations and their effect on high resolution imaging, new imaging modes such as ABF (annular bright field), and the latest developments in parallel processing using GPUs (graphic processing units), as well as updated references. Beginning and experienced users at the advanced undergraduate or graduate level will find the book to be a unique and essential guide to the theory and methods of computation in electron microscopy.
Author:
Publisher: Academic Press
Published: 2010-09-30
Total Pages: 423
ISBN-13: 0123849942
DOWNLOAD EBOOKThis volume, along with Part A and Part B, is dedicated to a description of the instruments, samples, protocols, and analyses that belong to cryo-EM. It emphasizes the relatedness of the ideas, instrumentation, and methods underlying all cryo-EM approaches, which allow practitioners to easily move between them. Within each section, the articles are ordered according to the most common symmetry of the sample to which their methods are applied. Includes time-tested core methods and new innovations applicable to any researcher Methods included are useful to both established researchers and newcomers to the field Relevant background and reference information given for procedures can be used as a guide
Author: Sirakov Boyan
Publisher: World Scientific
Published: 2019-02-27
Total Pages: 5396
ISBN-13: 9813272899
DOWNLOAD EBOOKThe Proceedings of the ICM publishes the talks, by invited speakers, at the conference organized by the International Mathematical Union every 4 years. It covers several areas of Mathematics and it includes the Fields Medal and Nevanlinna, Gauss and Leelavati Prizes and the Chern Medal laudatios.
Author: Matthew Croxford
Publisher:
Published: 2022
Total Pages: 0
ISBN-13:
DOWNLOAD EBOOKThe field of cell biology originated with, and has always been inextricably tied to, the microscope. Direct visualization has always been a key technique for understanding cell organization and behavior. Today, cell biologists have microscopes many orders of magnitude more powerful than their progenitors, enabling the direct visualization of cells and their constituent parts down to sub-nanometer resolution. Cryo-focused ion beam milling combined with cryo-elecyron tomography (cryo-FIB-ET) is a technique in which cells are rapidly frozen to preserve them in their native state, followed by focused ion beam (FIB) thinning of the frozen cells, which allows for the collection of high resolution transmission electron microscopy data. When these electron micrographs are collected over a range of different tilt angles, a full three-dimensional reconstruction of the cellular interior can be made and analyzed. However, despite the unprecedented level of detail available to cell biologists through cryo-FIB-ET, several challenges hinder its applicability to cell biology. On the experimental side, commonly used cryo-FIB-ET compatible substrates were not designed with cell biology in mind, and have features that make them sub-optimal for this purpose. Furthermore, limitations in the range of tilts at which data may be collected lead to missing information in the three-dimensional reconstructions that cause distortions and make the resulting volumes more difficult to interpret. The work presented in this dissertation focuses on both of these issues in an attempt to increase the utility of cryo-FIB-ET for cell biologists and expand the range of questions that may be addressed with the technique.
Author:
Publisher: Academic Press
Published: 2010-09-30
Total Pages: 472
ISBN-13: 0123849926
DOWNLOAD EBOOKThis volume is dedicated to a description of the instruments, samples, protocols, and analyses that belong to cryo-EM. It emphasizes the relatedness of the ideas, instrumentation, and methods underlying all cryo-EM approaches, which allow practitioners to easily move between them. Within each section, the articles are ordered according to the most common symmetry of the sample to which their methods are applied. Includes time-tested core methods and new innovations applicable to any researcher Methods included are useful to both established researchers and newcomers to the field Relevant background and reference information given for procedures can be used as a guide