List of Research Output | FY 2007

Papers, peer-reviewed conference proceedings etc.

【Computer Science Research and Development Office】

＜Research papers＞

R. Tian, G. Yagawa “Non-matching mesh gluing by meshless interpolation; An Alternative to Lagrange multipliers” International Journal for Numerical Methods in Engineering, Vol.71, No.4 PP.473-503
R. Tian, G. Yagawa “Allman's triangle, rotational DOF and partition of unity” International Journal for Numerical Methods in Engineering, Vol.69, No.4 PP.837-858
R. Tian, H. Matsubara and G. Yagawa “Advanced 4-node tetrahedrons” International Journal for Numerical Methods in Engineering, Vol.68, No.12 PP.1209-1231
M. Ida, T. Naoe and M. Futakawa “Direct observation and theoretical study of cavitation bubbles in liquid mercury" Physical Review E, Vol.75, No.4 PP.046304_1-046304_7
M. Ida, T. Naoe and M. Futakawa “Suppression of cavitation inception by gas bubble injection; A Numerical study focusing on bubble-bubble interaction” Physical Review E, Vol.76, No.4 PP.046309_1-046309_10
N. Kushida and Y. Okuda “Convergence acceleration of parallel CG-FEM with controlled domain decomposition for singularity problems" Journal of Computational Science and Technology (Internet), Vol.1, No.1 PP.2-13
Y. Shu “Inference of power plant quake-proof information based on interactive data mining approach” Advanced Engineering Informatics, Vol.21, No.3 PP.257-267
A. Nishida “Effect of Timoshenko coefficient in wave propagation analysis of a three-dimensional frame structure” Theoretical and Applied Mechanics Japan, Vol.56 PP.57-65

＜Peer-reviewed conference proceedings＞

M. Tani et al. “A Methodology of structural analysis for nuclear power plant size of assembly” Proceedings of Joint International Topical Meeting on Mathematics & Computations and Supercomputing in Nuclear Applications (M&C+SNA 2007) (CD-ROM)

【Simulation Technology Research and Development Office】

＜Research papers＞

F. Shimizu et al. “First-principles calculation on screw dislocation core properties in BCC molybdenum” Journal of the Earth Simulator, Vol.7 PP.17-21
T. Kadoyoshi et al. “Molecular dynamics study on the formation of stacking fault tetrahedra and unfaulting of Frank loops in FCC metals” Acta Materialia, Vol.55, No.9 PP.3073-3080
M. Yamaguchi, Y. Nishiyama and H. Kaburaki “Decohesion of iron grain boundaries by sulfur or phosphorous segregation; First-principles calculations” Physical Review B, Vol.76, No.3 PP.035418_1-035418_5
K. Ebihara et al. “Modeling of hydrogen thermal desorption profile of pure iron and eutectoid steel” ISIJ International, Vol.47, No.8 PP.1131-1140
S. Yamada et al. “Ultra large-scale exact-diagonalization for confined fermion-Hubbard model on the Earth Simulator; Exploration of superfluidity in confined strongly-correlated systems” Journal of the Earth Simulator, Vol.7 PP.23-35
A. Hayashi, M. Shiga and M. Tachikawa “H/D isotope effect on the dihydrogen bond by ab initio path integral molecular dynamics simulation” Molecular Simulation, Vol.33, No.1-2 PP.185-188
T. Kobayashi at el. (M. Shiga) “Ab initio study of ultrafast photochemical reaction dynamics of phenol blue” Journal of the American Chemical Society, Vol.129, No.20 PP.6405-6424
C. Iniotakis et al. (N. Hayashi) “Andreev bound states and tunneling characteristics of a noncentrosymmetric superconductor” Physical Review B, Vol.76, No.1 PP.012501_1-012501_4
E. Fukuyama et al. (M. Okumura) “Condition for the existence of complex modes in a trapped Bose-Einstein condensate with a highly quantized vortex” Physical Review A, Vol.76, No.4 PP.043608_1-043608_11
Y. Nagai et al. (N. Hayashi) “Calculated positions of point nodes in the gap structure of the borocarbide superconductor YNi₂B₂C” Physical Review B, Vol.76, No.21 PP.214514_1-214514_8
H. Deloar et al. (K. Saito) “Investigations of different kilovoltage X-ray energy for three-dimensional converging stereotactic radiotherapy system; Monte Carlo simulations with CT data” Medical Physics, Vol.33, No.12 PP.4635-4642
X. Gong, K. Nakamura, K. Yura and N. Go “BAAQ; An Infrastructure for application integration and knowledge discovery in bioinformatics” IEEE Transactions on Information Technology in Biomedicine, Vol.11, No.4 PP.428-434
M. Mizutani et al. (K. Nakamura) “Starting point to molecular design; Efficient automated 3D model builder Key3D” Chemical & Pharmaceutical Bulletin, Vol.54, No.12 PP.1680-1685
J. Shiina et al. (K. Nakamura) “Synthesis of pinguisane-type sesquiterpenoids acutifolone A, pinguisenol, and bisacutifolones by a Diels-Alder dimerization reaction” European Journal of Organic Chemistry, Vol.2007, No.31 PP.5190-5197
Y. Miyazawa et al. (K. Yura) “Discrimination of class I cyclobutane pyrimidine dimer photolyase from blue light photoreceptors by single methionine residue” Biophysical Journal, Vol.94, No.6 PP.2194-2203

＜Peer-reviewed conference proceedings＞

M. Machida, T. Koyama and Y. Ohashi “Vortex structure in weak to strong coupling superconductors; Crossover from BCS to BEC” Physica C, Vol.445-448 PP.194-197
M. Machida et al. “Novel pairing in the Hubbard model with confinement potential” Physica C, Vol.445-448 PP.90-93
M. Machida, T. Koyama and Y. Ohashi “Vortex microscopic structure in BCS to BEC Fermi superfluids” Physica C, Vol.460-462, No.1 PP.275-276
M. Machida and T. Koyama “Collective dynamics of macroscopic quantum tunneling in layered high-T_c superconductors” Superconductor Science and Technology, Vol.20, No.2 PP.S23-S27
M. Machida and T. Koyama “Collective macroscopic tunneling in intrinsic Josephson junctions” Physica C, Vol.460-462, No.1 PP.289-292
S. Yamada et al. “Strong pairing and microscopic inhomogeneity of lattice fermion systems” Physica C, Vol.463-465 PP.103-106
S. Yamada et al. “High-performance computing for exact numerical approaches to quantum many-body problems on the earth simulator” Proceedings of International Conference for High Performance Computing, Networking, Storage and Analysis (SC ’06) (CD-ROM)
M. Machida and T. Koyama “Theory for collective macroscopic tunneling in high-T_c intrinsic Josephson junctions” Physica C, Vol.463-465 PP.84-88
M. Go, K. Yura and M. Shionyu “Contribution of computational biology and structural genomics to understand genome and transcriptome” Frontiers of Computational Science PP.75-80

Talks at international and Japanese conferences

【Computer Science Research and Development Office】

T. Hirayama et al. “Computational science and engineering for simulation and data processing in nuclear science and engineering International Conference for High Performance Computing, Networking, Storage and Analysis (SC07)
N. Kushida “One approach of new parallel architecture for real space descritization methods” 1st Workshop REDIMPS (Research and Development of International Matrix Prediction System on French-Japan International Grid Computing Environment)
O. Hazama “Transient thermal stress analysis of a spherically curved tubesheet” 1st Workshop REDIMPS (Research and Development of International Matrix Prediction System on French-Japan International Grid Computing Environment)
C. Kino, N. Kushida, Y. Suzuki, N. Nakajima “Cognitive methodology based data analysis system for large scale data” International Conference for High Performance Computing, Networking, Storage and Analysis (SC07)

【Simulation Technology Research and Development Office】

M. Itakura, T. Kadoyoshi, H. Kaburaki “Molecular dynamics and quasi-two dimensional dislocation dynamics simulations on the Orowan pinning mechanism of a mixed dislocation in FCC metals” Joint International Topical Meeting on Mathematics & Computations and Supercomputing in Nuclear Applications (M&C+SNA 2007)
S. Yamada, T. Imamura, T. Kano, M. Machida “High-performance parallel diagonalization for huge matrices in quantum lattice-fermion problems” 1st Workshop REDIMPS (Research and Development of International Matrix Prediction System on French-Japan International Grid Computing Environment)
M. Shiga “Ab initio path integral ring polymer molecular dynamics” CECAM (Centre Européen de Calcul Atomique et Moleculaire); Theoretical and Experimental Studies of Quantum Dynamics in Condensed Phase Chemical Systems
N. Hayashi, C. Iniotakis, M. Sigrist “Josephson current between conventional and non-centrosymmetric superconductors” 2007 Swiss Workshop on Materials with Novel Electronic Properties (MaNEP SWM 2007)
T. Sunaga et al. “Analytic expression of the condition for the existence of complex modes for a trapped Bose-Einstein condensate with a highly quantized vortex 5th 21st Century COE Symposium on Physics of Self-Organization Systems
M. Mine, M. Okumura, T. Sunaga, Y. Yamanaka “Complex eigenvalues associated with trapped BEC and field theoretical description of unstable behavior” QuAMP 2007; An International Conference on Atomic, Molecular, Optical and Plasma Physics
H. Kaburaki, T. Tajima “Recent progress of supercomputing research in nuclear fields in Japan” Joint International Topical Meeting on Mathematics & Computations and Supercomputing in Nuclear Applications (M&C+SNA 2007)
H. Kaburaki, J. Li, S. Yip, H. Kimizuka “Dynamical properties of lattice thermal conduction” Conference on Computational Physics 2007 (CCP 2007)
T. Suzudo et al. “Modeling studies of recovery process induced by fission/ion truck in UO₂/CeO₂” New Cross-over Project International Workshop-4
K. Saito et al. “Verification of the dose calculation system IMAGINE for providing benchmark X-ray therapy doses through computer networks” 10th EFOMP Congress; 1st European Conference on Medical Physics
K. Nakamura, K. Yura, N. Go “Prediction of metal-binding sites for high-throughput metalloproteomics data” 7th European Symposium of the Protein Society

Research reports, technical reports and periodical articles

A. Nishida “Wave propagation behavior of a multi-connected structure” Proceedings of 13th International Congress on Sound and Vibration (ICSV-13) (CD-ROM)
Y. Idomura, M. Ida, S. Tokuda, L. Villard “Conservative gyrokinetic Vlasov simulation using Morinishi scheme” Europhysics Conference Abstracts (CD-ROM)
M. Ida, T. Naoe, M. Futakawa “Numerical study of gas and cavitation bubble dynamics in liquid mercury under negative pressure” Proceedings of 5th Joint ASME/JSME Fluids Engineering Conference (FEDSM2007) (CD-ROM)
M. Yamaguchi, H. Kaburaki “First-principles calculations on the grain boundary decohesion of iron and nickel by oxygen” Proceedings of Joint International Topical Meeting on Mathematics & Computations and Supercomputing in Nuclear Applications (M&C+SNA 2007)
T. Suzudo, H. Kaburaki, E. Wakai “A Three-dimensional meso-scale modeling for helium bubble growth in metals” Proceedings of Joint International Topical Meeting on Mathematics & Computations and Supercomputing in Nuclear Applications (M&C+SNA 2007)
M. Machida, T. Koyama, M. Tachiki “Direct numerical experiments on electromagnetic wave emission by flux flow in layered high-T_c super conductors” Proceedings of SPIE’s 1998 Annual Meeting, Vol.3480