scholarly journals Data Acquisition in 4D Atomic Electron Tomography

2019 ◽  
Vol 25 (S2) ◽  
pp. 1816-1817
Author(s):  
Jihan Zhou ◽  
Yongsoo Yang ◽  
Yao Yang ◽  
Colin Ophus ◽  
Fan Sun ◽  
...  
MRS Bulletin ◽  
2020 ◽  
Vol 45 (4) ◽  
pp. 290-297 ◽  
Author(s):  
Jihan Zhou ◽  
Yongsoo Yang ◽  
Peter Ercius ◽  
Jianwei Miao

Abstract


2017 ◽  
Vol 23 (S1) ◽  
pp. 1886-1887
Author(s):  
Yongsoo Yang ◽  
Chien-Chun Chen ◽  
M. C. Scott ◽  
Colin Ophus ◽  
Rui Xu ◽  
...  

Author(s):  
Felix Weis ◽  
Wim J. H. Hagen ◽  
Martin Schorb ◽  
Simone Mattei

Author(s):  
Peter Ercius ◽  
Rui Xu ◽  
Chien-Chun Chen ◽  
Li Wu ◽  
Mary Scott ◽  
...  

2001 ◽  
Vol 7 (S2) ◽  
pp. 88-89
Author(s):  
Ingo Daberkow ◽  
Bernhard Feja ◽  
Peter Sparlinek ◽  
Hans R. Tietz

During the last decade, computation of a three-dimensional image from a tilt series (3D reconstruction) has become a well established method, of which a variety of implementations are available. The term “electron tomography” is now generally used for this type of data acquisition and 3D reconstruction. An overview over the techniques involved is given in.With the introduction of micro-processor-controlled TEMs and cooled slow-scan CCD cameras and with the progress in performance of high-speed computers, automation of complex imaging procedures became mainly a task of developing appropriate software, using the control facilities of the microscope. in this way, automated electron tomography was realized in 1990 at the Max- Planck-Institute for Biochemistry in Martinsried, and at about the same time at the University of California in San Francisco (UCSF). New techniques for automatic focusing and alignment, developed somewhat earlier , have been integrated in these automated tomography procedures. in the following we discuss the requirements of automatic data acquisition and the present implementation for several TEMs.


2020 ◽  
Vol 26 (S2) ◽  
pp. 1848-1850
Author(s):  
Peter Ercius ◽  
Jihan Zhou ◽  
Yongsoo Yang ◽  
Yao Yang ◽  
Dennis Kim ◽  
...  

2020 ◽  
Vol 26 (S2) ◽  
pp. 1794-1796
Author(s):  
Jihan Zhou ◽  
Yongsoo Yang ◽  
Yao Yang ◽  
Colin Ophus ◽  
Fan Sun ◽  
...  

2020 ◽  
Vol 26 (S2) ◽  
pp. 652-654
Author(s):  
Jianwei Miao ◽  
Xuezeng Tian ◽  
Dennis Kim ◽  
Jihan Zhou ◽  
Yongsoo Yang ◽  
...  

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Juhyeok Lee ◽  
Chaehwa Jeong ◽  
Yongsoo Yang

AbstractFunctional properties of nanomaterials strongly depend on their surface atomic structures, but they often become largely different from their bulk structures, exhibiting surface reconstructions and relaxations. However, most of the surface characterization methods are either limited to 2D measurements or not reaching to true 3D atomic-scale resolution, and single-atom level determination of the 3D surface atomic structure for general 3D nanomaterials still remains elusive. Here we demonstrate the measurement of 3D atomic structure at 15 pm precision using a Pt nanoparticle as a model system. Aided by a deep learning-based missing data retrieval combined with atomic electron tomography, the surface atomic structure was reliably measured. We found that <$$100$$ 100 > and <$$111$$ 111 > facets contribute differently to the surface strain, resulting in anisotropic strain distribution as well as compressive support boundary effect. The capability of single-atom level surface characterization will not only deepen our understanding of the functional properties of nanomaterials but also open a new door for fine tailoring of their performance.


Open Biology ◽  
2021 ◽  
Vol 11 (10) ◽  
Author(s):  
James M. Parkhurst ◽  
Maud Dumoux ◽  
Mark Basham ◽  
Daniel Clare ◽  
C. Alistair Siebert ◽  
...  

In cryo-electron tomography (cryo-ET) of biological samples, the quality of tomographic reconstructions can vary depending on the transmission electron microscope (TEM) instrument and data acquisition parameters. In this paper, we present Parakeet, a ‘digital twin’ software pipeline for the assessment of the impact of various TEM experiment parameters on the quality of three-dimensional tomographic reconstructions. The Parakeet digital twin is a digital model that can be used to optimize the performance and utilization of a physical instrument to enable in silico optimization of sample geometries, data acquisition schemes and instrument parameters. The digital twin performs virtual sample generation, TEM image simulation, and tilt series reconstruction and analysis within a convenient software framework. As well as being able to produce physically realistic simulated cryo-ET datasets to aid the development of tomographic reconstruction and subtomogram averaging programs, Parakeet aims to enable convenient assessment of the effects of different microscope parameters and data acquisition parameters on reconstruction quality. To illustrate the use of the software, we present the example of a quantitative analysis of missing wedge artefacts on simulated planar and cylindrical biological samples and discuss how data collection parameters can be modified for cylindrical samples where a full 180° tilt range might be measured.


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