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99 Results Found

  • Article
  • Open Access
6 Citations
8,710 Views
15 Pages

Atomistic Modeling of the Negative Thermal Expansion in δ- Plutonium Based on the Two-State Description

  • Tongsik Lee,
  • Michael I. Baskes,
  • A. C. Lawson,
  • Shao Ping Chen and
  • Steven M. Valone

7 June 2012

The δ phase of plutonium with the fcc structure exhibits an unusual negative thermal expansion (NTE) over its narrow temperature range of stability, 593–736 K. An accurate description of the anomalous high-temperature volume effect of plutonium goes...

  • Review
  • Open Access
13 Citations
5,660 Views
20 Pages

Theoretical Basis of Quantum-Mechanical Modeling of Functional Nanostructures

  • Aleksey Fedotov,
  • Alexander Vakhrushev,
  • Olesya Severyukhina,
  • Anatolie Sidorenko and ,
  • Yuri Savva,
  • Nikolay Klenov and
  • Igor Soloviev
  • + 2 authors+ 0 author

16 May 2021

The paper presents an analytical review of theoretical methods for modeling functional nanostructures. The main evolutionary changes in the approaches of quantum-mechanical modeling are described. The foundations of the first-principal theory are con...

(This article belongs to the Section C: Physics)
  • Article
  • Open Access
3 Citations
1,299 Views
17 Pages

11 August 2025

Based on the literature data on the structure of liquid Pu, the pair contribution to the EAM potential of liquid Pu is calculated and the embedding potential is determined using the dependence of density on temperature. The properties of liquid Pu ar...

(This article belongs to the Special Issue Experimental and Theoretical Studies on the Physical Properties of Materials for Nuclear Engineering)
  • Article
  • Open Access
2 Citations
3,265 Views
17 Pages

Statistical Mechanics Treatment of the Broadened Snoek Relaxation Peak in Ternary Niobium–Vanadium–Oxygen Alloys

  • Jian Ren,
  • Liming Yu,
  • Yongchang Liu,
  • Huijun Li and ,
  • Zongqin Ma and
  • Jiefeng Wu
  • + 1 author+ 0 author

11 October 2018

The Snoek relaxation profiles for ternary Niobium–Vanadium–Oxygen systems were analyzed by an embedded-cell model of statistical mechanics treatment. The relaxation characteristic and broadening mechanism were systematically discussed and...

  • Article
  • Open Access
6 Citations
3,024 Views
10 Pages

13 April 2022

Phosphorus atoms in steels accumulate at grain boundaries via thermal and irradiation effects and induce grain boundary embrittlement, which is experimentally confirmed by an increase in the ductile-brittle transition temperature. Quantitative predic...

  • Article
  • Open Access
11 Citations
6,115 Views
10 Pages

Practical Cluster Models for a Layered β-NiOOH Material

  • Valeria Butera and
  • Maytal Caspary Toroker

29 April 2017

Due to the high oxygen evolution reaction (OER) activity, stability, and abundance of NiOx materials, they are found to be promising catalysts, competitive with expensive metal oxides such as IrO2 and RuO2. From a theoretical point of view, studies r...

  • Article
  • Open Access
1,715 Views
20 Pages

Kinetic Monte Carlo Modeling of the Spontaneous Deposition of Platinum on Au(111) Surfaces

  • María Cecilia Gimenez,
  • Oscar A. Oviedo and
  • Ezequiel P. M. Leiva

11 June 2025

The spontaneous deposition of platinum (Pt) atoms on Au(111) surfaces is systematically investigated through kinetic Monte Carlo simulations within the Embedded Atom Model framework. The kinetic model aims to capture both stoichiometric, atomic-scale...

(This article belongs to the Special Issue Statistical Mechanics of Lattice Gases)
  • Article
  • Open Access
3 Citations
2,561 Views
12 Pages

22 August 2024

A variational heteroencoder based on recurrent neural networks, trained with SMILES linear notations of molecular structures, was used to derive the following atomic descriptors: delta latent space vectors (DLSVs) obtained from the original SMILES of...

(This article belongs to the Section Computational and Theoretical Chemistry)
  • Article
  • Open Access
22 Citations
4,444 Views
13 Pages

9 January 2023

Interatomic interaction potentials are compared using a molecular dynamics modeling method to choose the simplest, but most effective, model to describe the interaction of copper nanoparticles and graphene flakes. Three potentials are considered: (1)...

(This article belongs to the Special Issue Novel Nanomaterials and Nanostructures)
  • Article
  • Open Access
7 Citations
3,692 Views
20 Pages

22 November 2024

The work described in this paper develops a formal method for modeling and exhaustive verification of mutual exclusion algorithms. The process is based on timed automata and the Uppaal model checker. The technique was successfully applied to several...

(This article belongs to the Section Analysis of Algorithms and Complexity Theory)
  • Article
  • Open Access
10 Citations
4,663 Views
22 Pages

Properties of Naked Silver Clusters with Up to 100 Atoms as Found with Embedded-Atom and Density-Functional Calculations

  • Shivangi Garg,
  • Navjot Kaur,
  • Neetu Goel,
  • Mohammad Molayem and ,
  • Valeri G. Grigoryan and
  • Michael Springborg
  • + 1 author+ 0 author

The structural and energetic properties of small silver clusters Agn with n = 2–100 atoms are reported. For n = 2–100 the embedded atom model for the calculation of the total energy of a given structure in combination with the basin-hoppi...

(This article belongs to the Section Computational and Theoretical Chemistry)
  • Article
  • Open Access
16 Citations
3,526 Views
15 Pages

28 September 2018

The oxidation mechanism of CO on W-embedded graphene was investigated by M06-2X density functional theory. Two models of tungsten atom embedded in single and double vacancy (W-SV and W-DV) graphene sheets were considered. It was found that over W-SV-...

(This article belongs to the Special Issue Supported Materials for Catalytic Application)
  • Article
  • Open Access
3 Citations
2,370 Views
21 Pages

5 March 2025

Nanocomposites composed of Cu and Mo were investigated by means of molecular dynamics (MD) simulations to study the incoherent interface between Cu and Mo. In order to select an appropriate potential capable of accurately describing the Cu-Mo system,...

(This article belongs to the Special Issue Design and Development of Metal Matrix Composites)
  • Article
  • Open Access
2 Citations
3,067 Views
11 Pages

6 April 2022

Molecular dynamics simulations of body-centered cubic (bcc) iron thin films with crack defects were carried out by adopting methods of EAM (Embedded Atom Method) potential, spin/exchange potential and spin/neel potential. In this article, the effects...

(This article belongs to the Section Theory and Simulation of Nanostructures)
  • Article
  • Open Access
56 Citations
9,886 Views
14 Pages

7 February 2023

The formation of intermetallic compounds (IMC) at the Al/Fe interface determined the mechanical property of steel-aluminum welded joint. To understand the interfacial microstructure evolution and relate diffusion mechanism of atoms cross the Al/Fe in...

(This article belongs to the Section Welding and Joining)
  • Article
  • Open Access
3 Citations
4,764 Views
8 Pages

11 January 2017

The effect of Debye plasma on the 1 s 2 s 2 2 S resonance states in the scattering of electron from helium atom has been investigated within the framework of the stabilization method. The interactions among the charged particles in Deby...

(This article belongs to the Section Atomic, Molecular and Nuclear Spectroscopy and Collisions)
  • Article
  • Open Access
43 Citations
7,515 Views
15 Pages

Molecular Property Prediction by Combining LSTM and GAT

  • Lei Xu,
  • Shourun Pan,
  • Leiming Xia and
  • Zhen Li

9 March 2023

Molecular property prediction is an important direction in computer-aided drug design. In this paper, to fully explore the information from SMILE stings and graph data of molecules, we combined the SALSTM and GAT methods in order to mine the feature...

(This article belongs to the Special Issue Artificial Intelligence (AI) in Biomedicine)
  • Article
  • Open Access
1,555 Views
8 Pages

Fragmentation of a Non-Rotating Ni19 Cluster: A Molecular Dynamics Study

  • Halil Avcı,
  • Mehmet Çivi,
  • Ziya B. Güvenç and
  • Julius Jellinek

Collisionless fragmentation of a non-rotating Ni19 cluster is studied using constant-energy molecular dynamics computer simulations. The cluster is modelled by an embedded atom model (EAM) energy surface. Distribution of the channel-specific fragment...

  • Review
  • Open Access
98 Citations
9,639 Views
30 Pages

Repulsive Fermi and Bose Polarons in Quantum Gases

  • Francesco Scazza,
  • Matteo Zaccanti,
  • Pietro Massignan,
  • Meera M. Parish and
  • Jesper Levinsen

27 May 2022

Polaron quasiparticles are formed when a mobile impurity is coupled to the elementary excitations of a many-particle background. In the field of ultracold atoms, the study of the associated impurity problem has attracted a growing interest over the l...

(This article belongs to the Special Issue Physics of Impurities in Quantum Gases)
  • Article
  • Open Access
1 Citations
2,588 Views
13 Pages

27 June 2024

We combine the charge equilibration (QEq) method with the modified embedded atom model (MEAM) to describe a series of intermetallic GaxPdy compounds at near DFT accuracy. Apart from structure, energetics and elastic properties, a particular focus is...

(This article belongs to the Special Issue Microstructure and Properties of Intermetallic Compounds)
  • Article
  • Open Access
4 Citations
3,499 Views
15 Pages

21 November 2022

The new ternary amalgam CsNa2Hg18 was synthesised from the elements in an unconventional low-temperature procedure. It crystallises in a tetragonal structure type (space group I4/mmm, a = 7.3054(7) and c = 20.046 Å) and combines ionic and metal...

(This article belongs to the Special Issue Compounds with Polar Metallic Bonding Volume II)
  • Review
  • Open Access
1 Citations
2,627 Views
11 Pages

24 August 2022

Defects in crystalline solids play a crucial role in determining properties of materials at the nano, meso- and macroscales, such as the coalescence of vacancies at the nanoscale to form voids and prismatic dislocation loops or diffusion and segregat...

(This article belongs to the Special Issue Applied Thermodynamics: Modern Developments)
  • Article
  • Open Access
5 Citations
13,265 Views
17 Pages

We report density functional electronic structure calculations to monitor the change in the surface characteristics of the Si (100)-2x1 surface after fluorination followed by interaction with water. Embedded finite silicon clusters are used to model...

  • Article
  • Open Access
16 Citations
4,285 Views
11 Pages

10 December 2021

The energy eigenvalues of the ground state helium atom and lowest two excited states corresponding to the configurations 1s2s embedded in the plasma environment using Hulthén, Debye–Hückel and exponential cosine screened Coulomb mod...

(This article belongs to the Special Issue Commemorative Issue in Honor of Professor Karlheinz Schwarz on the Occasion of his 80th Birthday)
  • Article
  • Open Access
7 Citations
2,648 Views
17 Pages

6 December 2024

Graphene is considered to be one of the most promising reinforcement phases for nanocomposites due to its unique two-dimensional planar structure with excellent mechanical properties. After the design of origami, the 2D material will obtain a negativ...

(This article belongs to the Special Issue Mechanical Properties of Composite Materials and Joints)
  • Article
  • Open Access
7 Citations
4,737 Views
10 Pages

20 February 2020

The thermodynamic and transport properties of weakly non-ideal, high-density partially ionized hydrogen plasma are investigated, accounting for quantum effects due to the change in the energy spectrum of atomic hydrogen when the electron–proton...

(This article belongs to the Special Issue Simulation with Entropy Thermodynamics)
  • Article
  • Open Access
23 Citations
5,646 Views
20 Pages

31 December 2021

The conformational properties of carbohydrates can contribute to protein structure directly through covalent conjugation in the cases of glycoproteins and proteoglycans and indirectly in the case of transmembrane proteins embedded in glycolipid-conta...

(This article belongs to the Special Issue Frontiers in Protein Structure Research)
  • Article
  • Open Access
4 Citations
2,910 Views
13 Pages

23 May 2025

This study introduces a novel contrastive learning-based X-ray diffraction (XRD) analysis framework, an SE(3)-equivariant graph neural network (E3NN) based Atomic Cluster Expansion Neural Network (EACNN), which reduces the strong dependency on databa...

  • Article
  • Open Access
30 Citations
5,819 Views
19 Pages

29 November 2021

The identification of drug-target interaction (DTI) plays a key role in drug discovery and development. Benefitting from large-scale drug databases and verified DTI relationships, a lot of machine-learning methods have been developed to predict DTIs....

(This article belongs to the Special Issue Advances in Drug Design and Development for Human Therapeutics Using Artificial Intelligence)
  • Article
  • Open Access
8 Citations
5,320 Views
11 Pages

3 April 2019

The surfaces of polymer and interfaces between polymer and inorganic particles are of particular importance for the properties of polymers and composites. However, the determination of the properties of surfaces and interfaces poses many challenges d...

  • Article
  • Open Access
16 Citations
8,065 Views
26 Pages

Novel-Substituted Heterocyclic GABA Analogues. Enzymatic Activity against the GABA-AT Enzyme from Pseudomonas fluorescens and In Silico Molecular Modeling

  • Erika Tovar-Gudiño,
  • Juan Alberto Guevara-Salazar,
  • José Raúl Bahena-Herrera,
  • José Guadalupe Trujillo-Ferrara and ,
  • Zuleyma Martínez-Campos,
  • Rodrigo Said Razo-Hernández,
  • Ángel Santiago,
  • Nina Pastor and
  • Mario Fernández-Zertuche
  • + 4 authors+ 0 author

γ-Aminobutyric acid (GABA) is the most important inhibitory neurotransmitter in the central nervous system, and a deficiency of GABA is associated with serious neurological disorders. Due to its low lipophilicity, there has been an intensive se...

(This article belongs to the Special Issue Recent Trends on Enzymes Inhibitors and Activators in Drug Research)
  • Article
  • Open Access
6 Citations
3,765 Views
13 Pages

4 November 2021

This work investigates the difference in the fragmentation characteristics between the microscopic and macroscopic scales under hypervelocity impact, with the simulations of Molecular Dynamics (MD) and Smoothed Particle Hydrodynamics (SPH) method. Un...

(This article belongs to the Special Issue Nanomechanics and Plasticity)
  • Article
  • Open Access
2 Citations
2,268 Views
15 Pages

One-Dimensional NaSn2F5 Crystals Inside Single-Walled Carbon Nanotubes

  • Ruslan M. Zakalyukin,
  • Ekaterina A. Levkevich and
  • Andrey S. Kumskov

6 July 2023

Crystals of NaSn2F5 were obtained from an aqueous solution. Their morphology and habitus were studied via scanning electron microscopy and X-ray phase diffraction analysis. The crystals obtained have a long prismatic shape with a very large aspect ra...

(This article belongs to the Special Issue Recent Developments of Crystallography in RAS (Russian Academy of Sciences))
  • Feature Paper
  • Article
  • Open Access
12 Citations
4,603 Views
15 Pages

What Is the Real State of Single-Atom Catalysts under Electrochemical Conditions—From Adsorption to Surface Pourbaix Plots?

  • Ana S. Dobrota,
  • Tanja Đokić,
  • Natalia V. Skorodumova,
  • Slavko V. Mentus and
  • Igor A. Pašti

8 October 2021

The interest in single-atom catalysts (SACs) is increasing, as these materials have the ultimate level of catalyst utilization, while novel reactions where SACs are used are constantly being discovered. However, to properly understand SACs and to fur...

(This article belongs to the Special Issue Commemorative Issue in Honor of Professor Gerhard Ertl on the Occasion of His 85th Birthday)
  • Article
  • Open Access
5 Citations
2,901 Views
15 Pages

19 December 2022

Embedding energetically stable single metal atoms in the surface of Pt nanocatalysts exposed to varied temperature (T) and hydrogen pressure (P) could open up new possibilities in selective and dynamical engineering of alloyed Pt catalysts, particula...

(This article belongs to the Section Computational Catalysis)
  • Article
  • Open Access
6 Citations
4,224 Views
18 Pages

26 November 2024

In the binding process between proteins and ligand molecules, water molecules play a pivotal role by forming hydrogen bonds that enable proteins and ligand molecules to bind more strongly. However, current methodologies for predicting binding affinit...

(This article belongs to the Special Issue New Computational Methodologies for Biomolecule Sequence, Structure and Function Discovery)
  • Article
  • Open Access
11 Citations
6,103 Views
31 Pages

QSAR and Molecular Docking Studies of the Inhibitory Activity of Novel Heterocyclic GABA Analogues over GABA-AT

  • Josué Rodríguez-Lozada,
  • Erika Tovar-Gudiño,
  • Juan Alberto Guevara-Salazar,
  • Rodrigo Said Razo-Hernández and ,
  • Ángel Santiago,
  • Nina Pastor and
  • Mario Fernández-Zertuche
  • + 2 authors+ 0 author

15 November 2018

We have previously reported the synthesis, in vitro and in silico activities of new GABA analogues as inhibitors of the GABA-AT enzyme from Pseudomonas fluorescens, where the nitrogen atom at the γ-position is embedded in heterocyclic scaffolds...

(This article belongs to the Special Issue QSAR and QSPR: Recent Developments and Applications)
  • Feature Paper
  • Article
  • Open Access
1,541 Views
24 Pages

21 May 2026

Large language models (LLMs) frequently produce text that is fluent yet factually inconsistent with source documents. Detecting such inconsistency remains challenging, particularly when errors involve subtle entity substitutions, temporal distortions...

(This article belongs to the Section E: Applied Mathematics)
  • Article
  • Open Access
9 Citations
2,775 Views
16 Pages

Polishing Characteristics of Cemented Carbide Using Cubic Boron Nitride Magnetic Abrasive Powders

  • Pengfei Chen,
  • Yuewu Gao,
  • Yugang Zhao,
  • Guoyong Zhao and ,
  • Guixiang Zhang,
  • Haiyun Zhang and
  • Zhuang Song
  • + 2 authors+ 0 author

8 December 2022

This paper describes the application of bonded magnetic abrasive powders (MAPs) in the magnetic abrasive finishing (MAF) process. In order to improve the poor finishing performance and short service life of MAPs in polishing super-hard materials, a d...

(This article belongs to the Special Issue Ultra-Precision Manufacturing Technology)
  • Article
  • Open Access
8 Citations
3,611 Views
17 Pages

Accelerating Elastic Property Prediction in Fe-C Alloys through Coupling of Molecular Dynamics and Machine Learning

  • Sandesh Risal,
  • Navdeep Singh,
  • Yan Yao,
  • Li Sun and ,
  • Samprash Risal and
  • Weihang Zhu
  • + 1 author+ 0 author

26 January 2024

The scarcity of high-quality data presents a major challenge to the prediction of material properties using machine learning (ML) models. Obtaining material property data from experiments is economically cost-prohibitive, if not impossible. In this w...

(This article belongs to the Section Metals and Alloys)
  • Article
  • Open Access
1 Citations
1,242 Views
14 Pages

MCARSMA: A Multi-Level Cross-Modal Attention Fusion Framework for Accurate RNA–Small Molecule Affinity Prediction

  • Ye Li,
  • Yongfeng Zhang,
  • Lei Zhu,
  • Menghua Wang and ,
  • Rong Wang and
  • Xiao Wang
  • + 1 author+ 0 author

24 December 2025

RNA has emerged as a critical drug target, and accurate prediction of its binding affinity with small molecules is essential for the design and screening of RNA-targeted therapeutics. Although current deep learning methods have achieved progress in p...

(This article belongs to the Special Issue Machine Learning Algorithms and Their Applications in Bioinformatics)
  • Article
  • Open Access
5 Citations
2,555 Views
30 Pages

1 December 2025

Advancements in deep learning have revolutionized materials discovery by enabling predictive modeling of complex material properties. However, single-modal approaches often fail to capture the intricate interplay of compositional, structural, and mor...

  • Article
  • Open Access
11 Citations
5,289 Views
19 Pages

Structure and Migration Mechanisms of Small Vacancy Clusters in Cu: A Combined EAM and DFT Study

  • Vasileios Fotopoulos,
  • David Mora-Fonz,
  • Manuel Kleinbichler,
  • Rishi Bodlos and ,
  • Ernst Kozeschnik,
  • Lorenz Romaner and
  • Alexander L. Shluger
  • + 2 authors+ 0 author

25 April 2023

Voids in face-centered cubic (fcc) metals are commonly assumed to form via the aggregation of vacancies; however, the mechanisms of vacancy clustering and diffusion are not fully understood. In this study, we use computational modeling to provide a d...

  • Article
  • Open Access
2,257 Views
32 Pages

23 April 2026

Multilingual learning is key in natural language processing, but is challenged by the transfer–interference trade-off, where positive transfer benefits certain languages, while negative interference affects others. Prior methods, including ling...

(This article belongs to the Section AI Systems: Theory and Applications)
  • Article
  • Open Access
30 Citations
9,019 Views
26 Pages

10 January 2019

We present a modified embedded atom method (MEAM) semi-empirical force-field model for the Ti1−xAlxN (0 ≤ x ≤ 1) alloy system. The MEAM parameters, determined via an adaptive simulated-annealing (ASA) minimization scheme, optimize the mod...

(This article belongs to the Special Issue Computational Design of Complex Structural Alloys)
  • Article
  • Open Access
5 Citations
2,361 Views
10 Pages

Radiation-Stimulated Formation of Two-Dimensional Structures Based on Calcium Silicide

  • Aigul F. Zinovieva,
  • Vladimir A. Zinovyev,
  • Natalia P. Stepina,
  • Vladimir A. Volodin and ,
  • Aleksey Y. Krupin,
  • Aleksey V. Kacyuba and
  • Anatoly V. Dvurechenskii
  • + 2 authors+ 0 author

16 October 2022

The formation of CaSi2 polycrystalline structures under the postgrowth electron irradiation of epitaxial CaF2/Si(111) films with embedded thin Si layers was studied. The dependence on the electron exposure time was investigated for two types of struc...

(This article belongs to the Special Issue Nanoelectronics, Nanosensors and Devices for Early Career Investigator)
  • Article
  • Open Access
1,652 Views
13 Pages

22 October 2025

We investigate the phenomenon of quantum interference in spontaneous emission pathways for a quantum emitter embedded in a two-dimensional photonic crystal composed of a square lattice of dielectric cylindrical rods. Using a V-type three-level system...

(This article belongs to the Section Quantum Photonics and Technologies)
  • Article
  • Open Access
14 Citations
4,641 Views
9 Pages

29 April 2020

The mechanical properties of copper alloys containing various ratios of zinc are evaluated using molecular dynamics (MD) simulations to determine the impact of the different zinc concentrations. The modified embedded atom method (MEAM) parameters for...

  • Article
  • Open Access
1 Citations
6,096 Views
10 Pages

Microwave Spectroscopic Detection of Human Hsp70 Protein on Annealed Gold Nanostructures on ITO Glass Strips

  • Rodica Elena Ionescu,
  • Raphael Selon,
  • Nicolas Pocholle,
  • Lan Zhou and ,
  • Anna Rumyantseva,
  • Eric Bourillot and
  • Eric Lesniewska
  • + 2 authors+ 0 author

27 November 2018

Conductive indium-tin oxide (ITO) and non-conductive glass substrates were successfully modified with embedded gold nanoparticles (AuNPs) formed by controlled thermal annealing at 550 °C for 8 h in a preselected oven. The authors characterized th...

(This article belongs to the Special Issue Immunoanalytical Tool with Electrochemical and Optical Detection)

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