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  • Open Access

    ABSTRACT

    Molecular dynamics simulations of the nano-indentation for aluminum and copper

    Xiaozhi Tang, Yafang Guo, Yu Gao

    The International Conference on Computational & Experimental Engineering and Sciences, Vol.20, No.1, pp. 25-26, 2011, DOI:10.3970/icces.2011.020.025

    Abstract Atomistic simulations were performed to study the nano-indentation for two kinds of FCC metals, aluminum and copper. Two different deformation mechanisms were observed in our simulation under exactly the same simulation condition. An embedded atom method potential was employed for copper and a generalized form of EAM potential due to Finnis and Sinclair for aluminum. In the simulation model, the substrate was constructed with 78408 atoms in an 8I?*40I?*60I? cell, here I? means the lattice constant. The indenter was modeled by a cubic with its side length of 8a.During the simulation, the period boundary condition… More >

  • Open Access

    ABSTRACT

    Petascale Molecular Dynamics Simulations of Photo-mechano-chemistry

    Aiichiro Nakano, Rajiv K. Kalia, Priya Vashishta

    The International Conference on Computational & Experimental Engineering and Sciences, Vol.16, No.4, pp. 125-126, 2011, DOI:10.3970/icces.2011.016.125

    Abstract We have developed a metascalable (or "design once, scale on new architectures") parallelization scheme to perform large spatiotemporal-scale molecular dynamics (MD) simulations of materials on peta-to-exaflops computers based on embedded divide-and-conquer algorithms. The scheme has achieved parallel efficiency well over 0.95 on 212,992 IBM BlueGene/L processors for 218 billion-atom MD and 1.68 trillion electronic degrees-of-freedom quantum-mechanical MD in the framework of density functional theory. Simulation results reveal intricate interplay between photoexcitation, mechanics, flow, and chemical reactions at the nanoscale. Specifically, we will discuss atomistic mechanisms of: (1) mechanically enhanced reaction kinetics in nanobubbles and nanojets; More >

  • Open Access

    ABSTRACT

    Mechanism study of TiO2 nanowire tensile behaviors via molecular dynamics simulations

    L. Dai1, V.B.C. Tan1,2, C.H. Sow1,3, C.T. Lim1,2,4, W.C.D. Cheong5

    The International Conference on Computational & Experimental Engineering and Sciences, Vol.9, No.3, pp. 151-162, 2009, DOI:10.3970/icces.2009.009.151

    Abstract The mechanisms governing the tensile response of TiO2 nanowires were studied by molecular dynamics simulations. The free side surfaces of the nanowires were found to be undulating because atoms near the free surface were relaxed into a disordered state during thermodynamic equilibration. For wires below a threshold diameter of around 10 Å, this free surface effect extends throughout the entire wire, resulting in a complete lack of ordered structure. For thick nanowires, the core of the wire retains a crystalline structure. The thicker the wire, the larger the crystalline core and the more dominant is its More >

  • Open Access

    ABSTRACT

    Molecular Dynamics Simulations of Carbon Nanotubes Cross-Bonding by Proton Irradiation

    N. J. Lee, C.R. Welch1

    The International Conference on Computational & Experimental Engineering and Sciences, Vol.13, No.1, pp. 11-12, 2009, DOI:10.3970/icces.2009.013.011

    Abstract Carbon nanotubes have significant potential as the basis for super infrastructure material. The shear modulus of carbon nanotube ensembles is relatively low, comparable to graphite, as the carbon nanotubes interact via weak van der Waals forces. Unmodified, their intermolecular interactions are insufficient to take full advantage of the extraordinarily high strengths predicted for carbon nanotube-based fibers. Thus, a key to their use in high-strength materials is developing strong bonds between these molecules. In this study, we examine the potential development of covalent bonds between carbon nanotube pairs cross-bonded by proton bombardment using molecular dynamics simulation. More >

  • Open Access

    ARTICLE

    The Algorithm of Chemical Species Analysis for Ab Intio Molecular Dynamics Simulations and Its Application

    Zhiyi Han1, Yugai Huang2,3, Xiaoqiang Xie1, Ying Mei1, Bin Gu1,*

    CMC-Computers, Materials & Continua, Vol.59, No.3, pp. 995-1003, 2019, DOI:10.32604/cmc.2019.02181

    Abstract In ab initio molecular dynamics (AIMD) simulations of chemical reactions, it is important but difficult to identify the chemical species in the trajectory automatically and quickly. In this paper, based on the chemical graph theory, an algorithm for molecular species identification, according to the molecular coordinates and empirical bond length database, is presented. As an example, the chemical species in condensed glycine at room temperature are investigated with our algorithm in detail. The chemical species, including canonical and zwitterionic glycine, their protonated and de-protonated states, and the free protons, are all identified, counted and recorded correctly. More >

  • Open Access

    ARTICLE

    Molecular Dynamics Simulations of Ions Diffusion in Carbon Nanotubes Embedded in Cell Membrane

    Qing Song Tu1, Michelle Lee2, Samuel Zhang2, Shaofan Li1

    CMES-Computer Modeling in Engineering & Sciences, Vol.98, No.3, pp. 247-259, 2014, DOI:10.32604/cmes.2014.098.247

    Abstract In this paper, we present molecular dynamics simulations of diffusion of Na+, K+, and Cl- ions through the single-walled carbon nanotubes(SWCNTs) that are embedded into the membrane of cells in aqueous solutions. A simplified atomic cell model that considers bilayer membranes is employed to study the transportation of ions inside CNTs. The simulated results indicate that the diffusion properties of ions and selectivity of CNT with respect to ions are affected by biological complexity of the cell membrane. We have found that the ion diffusion only occurs in the CNTs with chirality higher than (8, 8), which More >

  • Open Access

    ARTICLE

    Effect of Interface Modification on the Mechanical Behavior of Carbon Nanotube Reinforced Composites Using Parallel Molecular Dynamics Simulations

    S. Namilae1, U. Ch,ra2, A Srinivasan3, N. Ch,ra4

    CMES-Computer Modeling in Engineering & Sciences, Vol.22, No.3, pp. 189-202, 2007, DOI:10.3970/cmes.2007.022.189

    Abstract Molecular dynamics (MD) simulations play an important predictive role in understanding the behavior of nanoscale systems. In this paper, parallel MD simulations are used to understand the mechanical behavior of interfaces in CNT based composites. We present an algorithm for parallel implementation of MD simulations of carbon nanotube (CNT) based systems using reactive bond order potentials. We then use that algorithm to model the CNT-polymer interfaces with various levels of interaction as (a) described only by long range Van Der Waals interactions (b) chemically bonded with fixed matrix and (c) chemically bonded with matrix explicitly More >

  • Open Access

    ARTICLE

    Mechanical Properties of Carbon Nanotubes Using Molecular Dynamics Simulations with the Inlayer van der Waals Interactions

    W.H. Chen1, H.C. Cheng2, Y.C. Hsu3

    CMES-Computer Modeling in Engineering & Sciences, Vol.20, No.2, pp. 123-146, 2007, DOI:10.3970/cmes.2007.020.123

    Abstract The evaluation of the fundamental mechanical properties of single/multi-walled carbon nanotubes(S/MWCNTs) is of great importance for their industrial applications. The present work is thus devoted to the determination of various mechanical properties of S/MWCNTs using molecular dynamics (MD) simulations. The study first focuses on the exploration of the effect of the weak inlayer van der Waals (vdW) atomistic interactions on the mechanical properties of S/MWCNTs. Secondly, in addition to the zig-zag and armchair types of CNTs, the hybrid type of MWCNTs that comprise a zig-zag outer tube and an inner armchair tube is also analyzed.… More >

  • Open Access

    ARTICLE

    Molecular Dynamics Simulations of the Nanoindentation for Aluminum and Copper

    Xiaozhi Tang1, Yafang Guo1, Yu Gao1

    CMC-Computers, Materials & Continua, Vol.23, No.1, pp. 1-8, 2011, DOI:10.3970/cmc.2011.023.001

    Abstract Atomistic simulations were performed to study the nanoindentation for two kinds of FCC metals, aluminum and copper. Due to the higher stacking faults in aluminum than in copper, two different deformation mechanisms were observed in our simulation under exactly the same simulation condition. Aluminum and copper also showed different mechanical properties in the unloading stage. The influence of stacking sequence along the loading direction on deformation mechanism was also investigated in this paper. More >

  • Open Access

    ARTICLE

    An Investigation into the Mechanical Behavior of Single-Walled Carbon Nanotubes under Uniaxial Tension Using Molecular Statics and Molecular Dynamics Simulations

    Yeau-Ren Jeng1,Ping-Chi Tsai1,Guo-Zhe Huang1, I-Ling Chang1

    CMC-Computers, Materials & Continua, Vol.11, No.2, pp. 109-126, 2009, DOI:10.3970/cmc.2009.011.109

    Abstract This study performs a series of Molecular Dynamics (MD) and Molecular Statics (MS) simulations to investigate the mechanical properties of single-walled carbon nanotubes (SWCNTs) under a uniaxial tensile strain. The simulations focus specifically on the effects of the nanotube helicity, the nanotube diameter and the percentage of vacancy defects on the bond length, bond angle and tensile strength of zigzag and armchair SWCNTs. In this study, a good agreement is observed between the MD and MS simulation results for the stress-strain response of the SWCNTs in both the elastic and the plastic deformation regimes. The… More >

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