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Transmission electron microscopy (TEM) is a potent technique for the determination of three-dimensional atomic scale structure of samples in structural biology and materials science. In structural biology, three-dimensional structures of…

The standard technique for sub-pixel estimation of atom positions from atomic resolution scanning transmission electron microscopy images relies on fitting intensity maxima or minima with a two-dimensional Gaussian function. While this is a…

Materials Science · Physics 2020-01-28 Debangshu Mukherjee , Leixin Miao , Greg Stone , Nasim Alem

Recent advances in scanning transmission electron and scanning tunneling microscopies allow researchers to measure materials structural and electronic properties, such as atomic displacements and charge density modulations, at an Angstrom…

Directly imaging all atoms constituting a material and, maybe more importantly, crystalline defects that dictate materials' properties, remains a formidable challenge. Here, we propose a new approach to chemistry-sensitive field-ion…

Atomic electron tomography (AET) enables the determination of 3D atomic structures by acquiring a sequence of 2D tomographic projection measurements of a particle and then computationally solving for its underlying 3D representation.…

Image and Video Processing · Electrical Eng. & Systems 2025-12-18 Nalini M. Singh , Tiffany Chien , Arthur R. C. McCray , Colin Ophus , Laura Waller

Continuum robots offer high flexibility and multiple degrees of freedom, making them ideal for navigating narrow lumens. However, accurately modeling their behavior under large deformations and frequent environmental contacts remains…

Robotics · Computer Science 2025-03-11 Hao Chen , Jian Chen , Xinran Liu , Zihui Zhang , Yuanrui Huang , Zhongkai Zhang , Hongbin Liu

We introduce a Bayesian genetic algorithm for reconstructing atomic models of nanoparticles from a single projection using Z-contrast imaging. The number of atoms in a projected atomic column obtained from annular dark field scanning…

Materials Science · Physics 2022-03-31 Annick De Backer , Sandra Van Aert , Peter D. Nellist , Lewys Jones

A precise understanding of mechanisms governing the dynamics of electrons in atoms and molecules subjected to intense laser fields has a key importance for the description of attosecond processes such as the high-harmonic generation and…

Modern laboratory techniques like ultrafast laser excitation and shock compression can bring matter into highly nonequilibrium states with complex structural transformation, metallization and dissociation dynamics. To understand and model…

Computational Physics · Physics 2022-05-24 Qiyu Zeng , Bo Chen , Xiaoxiang Yu , Shen Zhang , Dongdong Kang , Han Wang , Jiayu Dai

Observing the individual building blocks of matter is one of the primary goals of microscopy. The invention of the scanning tunneling microscope [1] revolutionized experimental surface science in that atomic-scale features on a solid-state…

Materials Science · Physics 2008-08-04 Jannik C. Meyer , C. O. Girit , M. F. Crommie , A. Zettl

Understanding protein flexibility and its dynamic interactions with other molecules is essential for studying protein function. Although cryogenic electron microscopy(cryo-EM) provides an opportunity to observe macromolecular dynamics…

Computer Vision and Pattern Recognition · Computer Science 2026-02-03 Bintao He , Yiran Cheng , Hongjia Li , Xiang Gao , Xin Gao , Fa Zhang , Renmin Han

Despite decades of research, the ultimate goal of nanotechnology--top-down manipulation of individual atoms--has been directly achieved with only one technique: scanning probe microscopy. In this Review, we demonstrate that scanning…

Recent advances in scanning transmission electron and scanning probe microscopies have opened exciting opportunities in probing the materials structural parameters and various functional properties in real space with angstrom-level…

Compact radio sources sometimes exhibit intervals of large, rapid changes in their flux-density, due to lensing by interstellar plasma crossing the line-of-sight. A novel survey program has made it possible to discover these "Extreme…

Instrumentation and Methods for Astrophysics · Physics 2016-02-03 Artem V. Tuntsov , Mark A. Walker , Leon V. E. Koopmans , Keith W. Bannister , Jamie Stevens , Simon Johnston , Cormac Reynolds , Hayley E. Bignall

Focused Ion Beam Scanning Electron Microscope (FIB-SEM) imaging is a technique that image materials section-by-section at nano-resolution, e.g.,5 nanometer width voxels. FIB-SEM is well suited for imaging ultrastructures in cells.…

Quantitative Methods · Quantitative Biology 2020-08-06 Hans Jacob Teglbjærg Stephensen , Sune Darkner , Jon Sporring

Nowadays, modern electron microscopes deliver images at atomic scale. The precise atomic structure encodes information about material properties. Thus, an important ingredient in the image analysis is to locate the centers of the atoms…

Computer Vision and Pattern Recognition · Computer Science 2017-09-13 Benjamin Berkels , Benedikt Wirth

Accelerator-based MeV ultrafast electron microscope (MUEM) has been proposed as a promising tool to study structural dynamics at the nanometer spatial scale and picosecond temporal scale. Here we report experimental tests of a prototype…

With the advent of atomic-resolution transmission electron microscopy (AR-TEM) achieving sub-{\AA}ngstrom image resolution and submillisecond time resolution, an era of visual molecular science where chemists can visually study the time…

Materials Science · Physics 2022-07-06 Junfei Xing , Keishi Takeuchi , Ko Kamei , Takayuki Nakamuro , Koji Harano , Eiichi Nakamura

Insight in the structure of nanoparticle assemblies up to a single particle level is key to understand the collective properties of these assemblies, which critically depend on the individual particle positions and orientations. However,…

This work presents a practical finite element modeling strategy, the Crack Element Method (CEM), for simulating the dynamic crack propagation in two-dimensional structures. The method employs an element-splitting algorithm based on the…

Computational Engineering, Finance, and Science · Computer Science 2025-08-04 Yuxi Xie , Ethan J. Wu , Lu Xu , Jimmy Perez , Shaofan Li