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2015 Fiscal Year Research-status Report

ナノ構造形成過程の解明に向けた動的モンテカルロ法

Research Project

Project/Area Number 26410013
Research InstitutionNagoya University

Principal Investigator

Irle Stephan  名古屋大学, 理学部(WPI), 教授 (00432336)

Project Period (FY) 2014-04-01 – 2017-03-31
Keywordsnanotubes / DFTB/MD / rare events / KMC
Outline of Annual Research Achievements

We had proposed a new on-the-fly kinetic Monte Carlo (KMC) method that is based on exhaustive potential energy surface searching carried out with the global reaction route mapping (GRRM) algorithm. In this year we have succeeded in the implementation of this algorithm, which we call "fly-KMC". Starting from any given equilibrium structure, this global reaction route mapping (GRRM)-KMC algorithm performs a one-step GRRM search to identify all surrounding transition state barriers. Intrinsic reaction coordinate pathways are then calculated to identify potential subsequent equilibrium states. Harmonic transition state theory is used to calculate rate constants for all potential pathways, before a standard KMC accept/reject selection is performed. The selected pathway is then used to propagate the system forward in time, which is calculated on the basis of 1st order kinetics. The GRRM-KMC algorithm is validated here in two challenging contexts: intramolecular proton transfer in malonaldehyde, and surface carbon diffusion on an iron nanoparticle, relevant for the study of carbon nanotube growth in the final year of the project. We demonstrate that in both cases the GRRM-KMC method is capable of reproducing the 1st order kinetics observed during independent quantum chemical molecular dynamics simulations using the density-functional tight-binding (DFTB) potential. We are hopeful to extend the applicability of fly-KMC to nanotube growth on metal alloy nanoparticles, which has never before been attempted, using the DFTB parameters developed in the first year of the project.

Current Status of Research Progress
Current Status of Research Progress

2: Research has progressed on the whole more than it was originally planned.

Reason

We are within our plan for the 3-year project by having implemented the fly-KMC program, which combines KMC, DFTB, and GRRM methodologies to simulate rare events on long timescales. The development of this program is the centerpiece of this project, and its successful completion can only be called a success. A paper describing the program has been submitted on April 25 to a peer-reviewed, international journal.

Strategy for Future Research Activity

There remain still issues related to the efficiency of the fly-KMC code, which have to be addressed in the final year of the project (FY2016). In addition, the fly-KMC code now needs to be applied to the proposed study of carbon nanotube growth on metal alloy nanoparticles, which will also happen during FY2016.

Causes of Carryover

A collaborative trip to Stony Brook University and Oak Ridge National Lab was postponed for technical reasons to April, 2016.

Expenditure Plan for Carryover Budget

The remaining amount was spent on a collaborative trip to Stony Brook University and Oak Ridge National Lab was postponed for technical reasons in April 3-20, 2016.

  • Research Products

    (17 results)

All 2016 2015 Other

All Int'l Joint Research (2 results) Journal Article (10 results) (of which Int'l Joint Research: 9 results,  Peer Reviewed: 9 results) Presentation (5 results) (of which Int'l Joint Research: 3 results,  Invited: 5 results)

  • [Int'l Joint Research] Dr. Alister J. Page/Newcastle University/Newcastle, NSW, Australia(Australia)

    • Country Name
      Australia
    • Counterpart Institution
      Dr. Alister J. Page/Newcastle University/Newcastle, NSW, Australia
    • # of Other Institutions
      1
  • [Int'l Joint Research]

    • # of Other Countries
      1
  • [Journal Article] Cycloparaphenylene as molecular porous carbon solid with uniform pores exhibiting adsorption-induced softness2016

    • Author(s)
      H. Sakamoto, T. Fujimori, X. Li, K. Kaneko, K. Kan, N. Ozaki, Y. Hijikata, S. Irle, K. Itami
    • Journal Title

      Chem. Sci.

      Volume: Just accepted Pages: not yet

    • DOI

      10.1039/C6SC00092D

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Molecular dynamical modelling of endohedral fullerenes formation in plasma2016

    • Author(s)
      A. S. Fedorov, E. A. Kovaleva, T. A. Lubkova, Z. I. Popov, A. A. Kuzubov, M. A. Visotin, S. Irle
    • Journal Title

      IOP Conf. Series: Materials Science and Engineering

      Volume: 110 Pages: 012078/1-6

    • DOI

      10.1088/1757-899X/110/1/012078

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Implementation of replica-exchange umbrella sampling to DFTB+ simulation package2016

    • Author(s)
      S. Ito, S. Irle, Y. Okamoto
    • Journal Title

      Comp. Phys. Commun.

      Volume: accepted Pages: not yet

    • DOI

      10.1016/j.cpc.2016.02.010

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Self-assembly of endohedral metallofullerenes: a decisive role of cooling gas and metal–carbon bonding2016

    • Author(s)
      Q. Deng, Th. Heine, S. Irle, A. A. Popov
    • Journal Title

      Nanoscale

      Volume: 8(6) Pages: 3796-3808

    • DOI

      10.1039/c5nr08645k

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Diversity in electronic structure and vibrational properties of fullerene isomers correlates with cage curvature2016

    • Author(s)
      H. A. Witek, S. Irle
    • Journal Title

      Carbon

      Volume: 100 Pages: 484-494

    • DOI

      10.1016/j.carbon.2016.01.015

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] QM/MD studies on graphene growth from small islands on the Ni(111) surface2016

    • Author(s)
      M. Jiao, W. Song, H.-J. Qian, Y. Wang, Z. Wu, S. Irle, Keiji Morokuma
    • Journal Title

      Nanoscale

      Volume: 8(5) Pages: 3067-3074

    • DOI

      0.1039/c5nr07680c

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Automatized Parameterization of DFTB using Particle Swarm Optimization2016

    • Author(s)
      C.-P. Chou, Y. Nishimura, C.-C. Fan, G. Mazur, S. Irle, H. A. Witek
    • Journal Title

      J. Chem. Theory Comput.

      Volume: 12(1) Pages: 53-64

    • DOI

      10.1021/acs.jctc.5b00673

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Automatized Parameterization of the Density-functional Tight-binding Method. II. Two-center Integrals2016

    • Author(s)
      H. A. Witek, C.-P. Chou, G. Mazur, Y. Nishimura, S. Irle, Th. Frauenheim, K. Morokuma
    • Journal Title

      J. Chin. Chem. Soc.

      Volume: 63(1) Pages: 57-68

    • DOI

      10.1002/jccs.201500066

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Large-Scale Quantum-Mechanical Molecular Dynamics Simulations Using Density-Functional Tight-Binding Combined with the Fragment Molecular Orbital Method2015

    • Author(s)
      Y. Nishimoto, H. Nakata, D. G. Fedorov, S. Irle
    • Journal Title

      J. Chem. Phys. Lett.

      Volume: 6(24) Pages: 5034-5039

    • DOI

      10.1021/jz4015647

    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Third-order density-functional tight-binding combined with the fragment molecular orbital method2015

    • Author(s)
      Y. Nishimoto, D. G. Fedorov, S. Irle
    • Journal Title

      Chem. Phys. Lett.

      Volume: 636 Pages: 90-96

    • DOI

      10.1016/j.cplett.2015.07.022

  • [Presentation] Molecular Dynamics in Computational Materials Sciences: From the Study of Nanostructure Formation to the Design of Fluorescent Dyes2016

    • Author(s)
      S. Irle
    • Organizer
      Computational Chemistry (CC) symposium, International Conference on Computational Methods in Science and Engineering (ICCMSE) 2016
    • Place of Presentation
      Metropolitan Hotel, Athens, Greece
    • Year and Date
      2016-03-17 – 2016-03-20
    • Invited
  • [Presentation] A priori prediction of chemical reaction mechanisms in complex systems based on quantum chemical molecular dynamics2015

    • Author(s)
      S. Irle
    • Organizer
      Pacifichem 2015
    • Place of Presentation
      Honolulu, HI, U.S.A.
    • Year and Date
      2015-12-15 – 2015-12-20
    • Int'l Joint Research / Invited
  • [Presentation] Calculation of Charge Carrier Mobility in Covalent Organic Frameworks2015

    • Author(s)
      S. Irle
    • Organizer
      Pacifichem 2015
    • Place of Presentation
      Honolulu, HI, U.S.A.
    • Year and Date
      2015-12-15 – 2015-12-20
    • Int'l Joint Research / Invited
  • [Presentation] Simulations of dynamic C60-Ih self-assembly cut the Gordian Knot: Coexistence of bottom-up and top-down mechanisms2015

    • Author(s)
      S. Irle
    • Organizer
      Molecular Designs for Advance Materials: Workshop and Conference
    • Place of Presentation
      Chiang Mai University, Thailand
    • Year and Date
      2015-11-24 – 2015-11-27
    • Invited
  • [Presentation] Fun with graphenes: Quantum chemical simulations of synthesis and hydrogenation dynamics2015

    • Author(s)
      S. Irle
    • Organizer
      Satellite meeting of the 15th International Congress of Quantum Chemistry (ICQC)
    • Place of Presentation
      Hefei, China
    • Year and Date
      2015-06-14 – 2015-06-17
    • Int'l Joint Research / Invited

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Published: 2017-01-06  

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