Journal of Computer Chemistry, Japan
Online ISSN : 1347-3824
Print ISSN : 1347-1767
ISSN-L : 1347-1767
Volume 19, Issue 2
Displaying 1-5 of 5 articles from this issue
Foreword
Letters (Selected Paper)
  • Michiko YOSHITAKE, Takashi KONO, Takuya KADOHIRA
    2020Volume 19Issue 2 Pages 25-35
    Published: 2020
    Released on J-STAGE: October 27, 2020
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    Supplementary material

    A program for fully automatic conversion of line plots in scientific papers into numerical data has been developed. By the conversion of image data into numerical data, users can treat so-called 'spectra' such as X-ray photoelectron spectra and optical absorption spectra in their purpose, plotting them in different ways such as inverse of wave number, subtracting them from users' data, and so forth. This article reports details of the program consisting of many parts, with several deep-learning models with different functions, elimination of literal characters, color separation, etc. Most deep-learning models achieve accuracy higher than 95%. The usability is demonstrated with some examples.

  • Michiko YOSHITAKE
    2020Volume 19Issue 2 Pages 36-42
    Published: 2020
    Released on J-STAGE: October 27, 2020
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    A method for interdisciplinary material search using knowledge database, materials curation, has been proposed. It enables the finding of a direction of search without numerical data from experiments or calculations. The knowledge used is a compilation of relations between materials properties. Examples of the compilation and the computer system used to search the compilation (in the form of network-type database) are demonstrated. Furthermore, a technique is under development to extract knowledge on quantitative relations from mathematical formula in literatures.

  • Hiroyuki TERAMAE, Tetsuhide MATSUO, Kazuma NIWATSUKINO, Ryota INOUE, S ...
    2020Volume 19Issue 2 Pages 43-45
    Published: 2020
    Released on J-STAGE: November 19, 2020
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    The values of the internuclear distances and the dipole moments of 14 small molecules have been estimated by machine learning with only molecular orbital energies as the explanatory variables. We use four regression methods, partial least square (PLS), random forest (RF), Radial Basis Function Kernel Regularized Least Squares (krlsRadial), and Baysian Regularized Neural Networks (BRNN) and we report only BRNN results for the internuclear distances, and PLS results for the dipole moments. The coefficients of determination for the internulear distances and the dipole moments are 0.9318 and 0.7265, respectively. It has been proved that the internuclear distances and the dipole moments can be predicted by the molecular orbital energies only.

  • Kazushi KIMOTO, Katsuyuki KAWAMURA, Hitoshi MAKINO
    2020Volume 19Issue 2 Pages 46-49
    Published: 2020
    Released on J-STAGE: December 10, 2020
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    This study proposes a 2D coarse-grained molecular dynamics (CGMD) method for the compaction simulation of montmorillonite clay.In the CGMD method, a unit structure of a water-hydrated clay molecule is coarse-grained into a particle.Thus, the deformable molecules are modeled as a set of linearly connected coarse-grained particles.As the inter-particle forces, the intra-molecular bonding and inter-molecular van der Waals forces are considered.For simplicity, the intra-molecular bonding is modeled as a linear harmonic oscillator, while the Lenard-Jones potential is used to define the van der Waals force field. With this model, the mechanical compaction of moistured montmorillonite is numerically simulated to find that 4-6 considerably deformed molecules are layered as a result of the compaction.It is also found that the simulated XRD pattern agrees with the experiment in terms of the peak angle.

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