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Stochastic multisymplectic integrator for stochastic KdV equation

AIP Conference Proceedings 2012年第1期1479卷 1757-1760页

作者： Shanshan Jiang Lijin Wang Jialin Hong College of Science Beijing University of Chemical Technology Beijing 100029 China School of Mathematical Sciences University of Chinese Academy of Sciences Beijing 100049 China State Key Laboratory of Scientific and Engineering Computing Institute of Computational Mathematics and Scientific/Engineering Computing Academy of Mathematics and System Science Chinese Academy of Sciences P.O. Box 2719 Beijing 100190 China

In this paper we investigate the stochastic multisymplectic methods to solve the stochastic partial differential equation. The stochastic KdV equations are considered. Besides conserving the multi-symplectic structure of original equation, the stochastic multi-symplectic methods are also investigated for the conservation of various conservation laws. We deduce the transit laws of the specific formal conservation laws. Numerical experiments are illustrated to verify the good behaviors of stochastic multisymplectic methods.

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Bifurcation analysis of the flow patterns in two-dimensional rayleighbénard convection

Bifurcation analysis of the flow patterns in two-dimensional...

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作者： Paul, Supriyo Verma, Mahendra K. Wahi, Pankaj Reddy, Sandeep K. Kumar, Krishna Department of Physics Indian Institute of Technology Kanpur 208 016 India Department of Mechanical Engineering Indian Institute of Technology Kanpur 208 016 India Department of Physics and Meteorology Indian Institute of Technology Kharagpur 721 302 India Computational Fluid Dynamics Team Scientific and Engineering Application Group Centre for Development of Advanced Computing Pune 411 007 India

We investigate the origin of various convective patterns for Prandtl number P = 6.8 (for water at room temperature) using bifurcation diagrams that are constructed using direct numerical simulations (DNS) of RayleighBénard convection (RBC). Several complex flow patterns resulting from normal bifurcations as well as various instances of "crises" have been observed in the DNS. "Crises" play vital roles in determining various convective flow patterns. After a transition of conduction state to convective roll states, we observe time-periodic and quasiperiodic rolls through Hopf and NeimarkSacker bifurcations at r 80 and r 500 respectively (where r is the normalized Rayleigh number). The system becomes chaotic at r 750, and the size of the chaotic attractor increases at r 840 through an "attractor-merging crisis" which results in traveling chaotic rolls. For 846 ≤ r ≤ 849, stable fixed points and a chaotic attractor coexist as a result of an inverse subcritical Hopf bifurcation. Subsequently the chaotic attractor disappears through a "boundary crisis" and only stable fixed points remain. These fixed points later become periodic and chaotic through another set of bifurcations which ultimately leads to turbulence. As a function of Rayleigh number, |W101| ∼ (r - 1)0.62 and |θ101| ∼ (r - 1)-0.34 (velocity and temperature Fourier coefficient for (1, 0, 1) mode). However the Nusselt number scales as (r - 1)0.33. © 2012 World scientific Publishing Company.

关键词： Flow patterns

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Abstracts from the 3rd International Genomic Medicine Conference (3rd IGMC 2015) : Jeddah, Kingdom of Saudi Arabia. 30 November - 3 December 2015

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BMC genomics 2016年第6期17 Suppl 6卷 487页

作者： Jerry W. Shay Noriko Homma Ruyun Zhou Muhammad Imran Naseer Adeel G. Chaudhary Mohammed Al-Qahtani Nobutaka Hirokawa Maryam Goudarzi Albert J. Fornace Saleh Baeesa Deema Hussain Mohammed Bangash Fahad Alghamdi Hans-Juergen Schulten Angel Carracedo Ishaq Khan Hanadi Qashqari Nawal Madkhali Mohamad Saka Kulvinder S. Saini Awatif Jamal Jaudah Al-Maghrabi Adel Abuzenadah Adeel Chaudhary Mohammed Al Qahtani Ghazi Damanhouri Heba Alkhatabi Anne Goodeve Laura Crookes Nikolas Niksic Nicholas Beauchamp Adel M. Abuzenadah Jim Vaught Bruce Budowle Mourad Assidi Abdelbaset Buhmeida Leena Merdad Sudhir Kumar Sayaka Miura Karen Gomez Mahmood Rasool Ahmed Rebai Sajjad Karim Hend F. Nour Eldin Heba Abusamra Elham M. Alhathli Nada Salem Mohammed H. Al-Qahtani Hossam Faheem Ashok Agarwa Eberhard Nieschlag Joachim Wistuba Oliver S. Damm Mohd A. Beg Taha A. Abdel-Meguid Hisham A. Mosli Osama S. Bajouh Serdar Coskun Muhammad Abu-Elmagd Ashraf Dallol Sahar Hakamy Wejdan Al-Qahtani Asia Al-Harbi Shireen Hussain Burak Ozkosem Rick DuBois Safia S. Messaoudi Maryam T. Dandana Touhami Mahjoub Wassim Y. Almawi S. Abdalla M. Nabil Al-Aama Asmaa Elzawahry Tsuyoshi Takahashi Sachiyo Mimaki Eisaku Furukawa Rie Nakatsuka Isao Kurosaka Takahiko Nishigaki Hiromi Nakamura Satoshi Serada Tetsuji Naka Seiichi Hirota Tatsuhiro Shibata Katsuya Tsuchihara Toshirou Nishida Mamoru Kato Sajid Mehmood Naeem Mahmood Ashraf Awais Asif Muhammad Bilal Malik Siddique Mehmood Aadil Hussain Qazi Mohammad Sajid Jamal Mughees Uddin Siddiqui Mohammad A. Alzohairy Mohammad A. Al Karaawi Taoufik Nedjadi Heba Al-Khattabi Adel Al-Ammari Ahmed Al-Sayyad Hédia Zitouni Nozha Raguema Marwa Ben Ali Wided Malah Raja Lfalah Wassim Almawi Mohammed Elanbari Andrey Ptitsyn Sana Mahjoub Rabeb El Ghali Bechir Achour Nidhal Ben Amor Brahim N’siri Hamid Morjani Esam Azhar Vera Chayeb Maryam Dendena Hedia Zitouni Khedija Zouari-Limayem Bassem Refaat Ahmed M. Ashshi Sarah A. Batwa Hazem Ramadan Amal Awad Ahmed Ateya Adel Galal Ahmed El-Shemi Ahmad Ashshi Mohammed Basalamah Youjin Na Cha University of Texas Southwestern Medical Center Dallas USA Department of Cell Biology and Anatomy Graduate School of Medicine the University of Tokyo Tokyo Japan Center of Excellence in Genomic Medicine Research King Abdulaziz University Jeddah Saudi Arabia Department of Biochemistry and Molecular & Cellular Biology Lombardi Comprehensive Cancer Center Georgetown University Washington USA Department of Oncology Lombardi Comprehensive Cancer Center Georgetown University Washington USA Department of Radiation Medicine Lombardi Comprehensive Cancer Center Georgetown University Washington USA Center of Excellence in Genomic Medicine Research (CEGMR) King Abdulaziz University Jeddah Kingdom of Saudi Arabia King Fahd Medical Research Centre King Abdulaziz University Jeddah Saudi Arabia Centre of Excellence in Genomic Medicine Research King Abdulaziz University Jeddah Saudi Arabia Sheffield Diagnostic Genetic Service Sheffield Children’s NHS Foundation Trust Western Bank Sheffield UK Center of Innovations in Personalized Medicine King Abdulaziz University Jeddah Saudi Arabia President ISBER Editor-in-Chief Biopreservation & Biobanking ᅟ USA Institute of Applied Genetics Department of Molecular and Medical Genetics University of North Texas Health Science Center Fort Worth USA Department of Dental Public Health Faculty of Dentistry King Abdulaziz University Jeddah Saudi Arabia Institute for Genomics and Evolutionary Medicine Temple University Philadelphia USA Center of Excellence in Genomic Medicine King Abdulaziz University Jeddah Kingdom of Saudi Arabia Laboratory of Molecular and Cellular Screening Processes (Bioinformatics Group) Centre of Biotechnology of Sfax Sfax Tunisia Fujitsu Technology Solutions International ᅟ ᅟ Case Western Reserve University School of Medicine and Lerner College of Medicine Cleveland Clinic Foundation Cleveland USA American Center for Reproductive Medicine Andrology Center Cleveland USA Center for Reproductive Medicine and

O1 Regulation of genes by telomere length over long distances Jerry W. Shay O2 The microtubule destabilizer KIF2A regulates the postnatal establishment of neuronal circuits in addition to prenatal cell survival, cell migration, and axon elongation, and its loss leading to malformation of cortical development and severe epilepsy Noriko Homma, Ruyun Zhou, Muhammad Imran Naseer, Adeel G. Chaudhary, Mohammed Al-Qahtani, Nobutaka Hirokawa O3 Integration of metagenomics and metabolomics in gut microbiome research Maryam Goudarzi, Albert J. Fornace Jr. O4 A unique integrated system to discern pathogenesis of central nervous system tumors Saleh Baeesa, Deema Hussain, Mohammed Bangash, Fahad Alghamdi, Hans-Juergen Schulten, Angel Carracedo, Ishaq Khan, Hanadi Qashqari, Nawal Madkhali, Mohamad Saka, Kulvinder S. Saini, Awatif Jamal, Jaudah Al-Maghrabi, Adel Abuzenadah, Adeel Chaudhary, Mohammed Al Qahtani, Ghazi Damanhouri O5 RPL27A is a target of miR-595 and deficiency contributes to ribosomal dysgenesis Heba Alkhatabi O6 Next generation DNA sequencing panels for haemostatic and platelet disorders and for Fanconi anaemia in routine diagnostic service Anne Goodeve, Laura Crookes, Nikolas Niksic, Nicholas Beauchamp O7 Targeted sequencing panels and their utilization in personalized medicine Adel M. Abuzenadah O8 International biobanking in the era of precision medicine Jim Vaught O9 Biobank and biodata for clinical and forensic applications Bruce Budowle, Mourad Assidi, Abdelbaset Buhmeida O10 Tissue microarray technique: a powerful adjunct tool for molecular profiling of solid tumors Jaudah Al-Maghrabi O11 The CEGMR biobanking unit: achievements, challenges and future plans Abdelbaset Buhmeida, Mourad Assidi, Leena Merdad O12 Phylomedicine of tumors Sudhir Kumar, Sayaka Miura, Karen Gomez O13 Clinical implementation of pharmacogenomics for colorectal cancer treatment Angel Carracedo, Mahmood Rasool O14 From association to causality: translation of GWAS findings for genomic me

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An Efficient Multigrid Method for Molecular Mechanics Modeling in Atomic Solids

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Communications in computational Physics 2011年第6期10卷 70-89页

作者： Jingrun Chen Pingbing Ming Institute of Computational Mathematics and Scientific/Engineering Computing AMSSChinese Academy of SciencesBeijing 100190China LSEC Institute of Computational Mathematics and Scientific/Engineering ComputingAMSSChinese Academy of SciencesBeijing 100190China

We propose a multigrid method to solve the molecular mechanics model(molecular dynamics at zero temperature).The Cauchy-Born elasticity model is employed as the coarse grid operator and the elastically deformed state as the initial guess of the molecular mechanics *** efficiency of the algorithm is demonstrated by three examples with homogeneous deformation,namely,one dimensional chain under tensile deformation and aluminum under tension and shear *** method exhibits linear-scaling computational complexity,and is insensitive to parameters arising from iterative *** addition,we study two examples with inhomogeneous deformation:vacancy and nanoindentation of *** results are still satisfactory while the linear-scaling property is lost for the latter example.

关键词： Multigrid method linear-scaling algorithm Cauchy-Born rule nanoindentation

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Multistep $\varepsilon$–algorithm, Shanks’ transformation, and the Lotka–Volterra system by Hirota’s method

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mathematics of Computation 2012年第279期81卷 1527-1549页

作者： Brezinski, Claude He, Yi Hu, Xing-Biao Redivo-Zaglia, Michela Sun, Jian-Qing Laboratoire Paul Painlevé UMR CNRS 8524 UFR de Mathématiques Pures et Appliquées Université des Sciences et Technologies de Lille France LSEC Institute of Computational Mathematics and Scientific Engineering Computing AMSS Chinese Academy of Sciences and Graduate School of the Chinese Academy of Sciences Beijing People’s Republic of China LSEC Institute of Computational Mathematics and Scientific Engineering Computing AMSS Chinese Academy of Sciences Beijing People’s Republic of China Università degli Studi di Padova Dipartimento di Matematica Pura ed Applicata Italy

Abstract: In this paper, we propose a multistep extension of the Shanks sequence transformation. It is defined as a ratio of determinants. Then, we show that this transformation can be recursively implemented by a multistep extension of the $\varepsilon$–algorithm of Wynn. Some of their properties are specified. Thereafter, the multistep $\varepsilon$–algorithm and the multistep Shanks transformation are proved to be related to an extended discrete Lotka–Volterra system. These results are obtained by using Hirota’s bilinear method, a procedure quite useful in the solution of nonlinear partial differential and difference equations.

关键词： Convergence acceleration algorithm 𝜖–algorithm Shanks’ transformation Lotka–Volterra system

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Coarse-graining renormalization by higher-order singular value decomposition

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Physical Review B 2012年第4期86卷 045139-045139页

作者： Z. Y. Xie J. Chen M. P. Qin J. W. Zhu L. P. Yang T. Xiang Institute of Theoretical Physics Chinese Academy of Sciences P.O. Box 2735 Beijing 100190 China Institute of Physics Chinese Academy of Sciences P.O. Box 603 Beijing 100190 China Institute of Computational Mathematics and Scientific/Engineering Computing Academy of Mathematics and Systems Science Chinese Academy of Sciences Beijing 100190 China Beijing Computational Science Research Center Beijing 100084 China

We propose a novel coarse-graining tensor renormalization group method based on the higher-order singular value decomposition. This method provides an accurate but low computational cost technique for studying both classical and quantum lattice models in two or three dimensions. We have demonstrated this method using the Ising model on the square and cubic lattices. By keeping up to 16 bond basis states, we obtain by far the most accurate numerical renormalization group results for the three-dimensional Ising model. We have also applied the method to study the ground state as well as finite temperature properties for the two-dimensional quantum transverse Ising model and obtain the results which are consistent with published data.

关键词： RENORMALIZATION (Physics) DECOMPOSITION (mathematics) QUANTUM theory LATTICE theory ISING model TEMPERATURE effect

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Classification of prostate histopathology images based on multifractal analysis

Classification of prostate histopathology images based on mu...

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作者： Atupelage, Chamidu Nagahashi, Hiroshi Yamaguchi, Masahiro Abe, Tokiya Hashiguchi, Akinori Sakamoto, Michiie Department of Computational Intelligence and Systems Science Tokyo Institute of Technology Yokohama-shi 226-8503 Japan Imaging Science and Engineering Laboratory Tokyo Institute of Technology Yokohama-shi 226-8503 Japan Global Scientific Information and Computing Center Tokyo Institute of Technology Tokyo 152-8550 Japan Department of Pathology School of Medicine Keio University Tokyo 160-8582 Japan

Histopathology is a microscopic anatomical study of body tissues and widely used as a cancer diagnosing method. Generally, pathologists examine the structural deviation of cellular and sub-cellular components to diagnose the malignancy of body tissues. These judgments may often subjective to pathologists' skills and personal experiences. However, computational diagnosis tools may circumvent these limitations and improve the reliability of the diagnosis decisions. This paper proposes a prostate image classification method by extracting textural behavior using multifractal analysis. Fractal geometry is used to describe the complexity of self-similar structures as a non-integer exponent called fractal dimension. Natural complex structures (or images) are not self-similar, thus a single exponent (the fractal dimension) may not be adequate to describe the complexity of such structures. Multifractal analysis technique has been introduced to describe the complexity as a spectrum of fractal dimensions. Based on multifractal computation of digital imaging, we obtain two textural feature descriptors;i) local irregularity: α and ii) global regularity: f (α). We exploit these multifractal feature descriptors with a texton dictionary based classification model to discriminate cancer/non-cancer tissues of histopathology images of H&E stained prostate biopsy specimens. Moreover, we examine other three feature descriptors;Gabor filter bank, LM filter bank and Haralick features to benchmark the performance of the proposed method. Experiment results indicated that the performance of the proposed multifractal feature descriptor outperforms the other feature descriptors by achieving over 94% of correct classification accuracy. Copyright © 2012 The institute of Electronics, Information and Communication Engineers.

关键词： Fractal dimension

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MULTI-PUNCTURE INITIAL DATA IN NUMERICAL RELATIVITY

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International Journal of Modern Physics: Conference Series 2012年第7期ijmpcs卷 247-258页

作者： CHUN-YU LIN ZHOUJIAN CAO HWEI-JANG YO Department of Physics National Cheng Kung University Tainan 70101 Taiwan Institute of Applied Mathematics Academy of Mathematics and Systems Science Chinese Academy of Sciences Beijing 100190 China State Key Laboratory of Scientific and Engineering Computing China

We present a spectral multi-puncture initial data solver based on the LORENE library http://***/ . The solver generates multi black holes initial data with arbitrary linear momentum and spin within a moderate computational resource. The local convergence test shows that the solution rapidly converged to a high precision.

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Exponential synchronization of stochastic complex networks with time-varying delays by adaptive control

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International Journal of Advancements in computing Technology 2012年第20期4卷 239-249页

作者： Wu, XueFei Xu, Chen Feng, Jianwen Zhao, Yi School of Computer Engineering Shenzhen Polytechnic China College of Information Engineering Shenzhen University China Chen Xu Institute of Intelligent Computing Science Shenzhen University China College of Mathematics and Computational Sciences Shenzhen University China

This paper studies the exponential synchronization of stochastic complex networks with switching topology and time-varying delays by using the adaptive control method. Based on stability theory of switching systems, the synchronization of the complex network, which is subject to vector-form stochastic perturbations, switching topology and different internal and outer time-varying delays, is investigated. Moreover, a kind of adaptive controller is designed. Sufficient conditions for exponential synchronization are obtained by using the Lyapunov-Krasovskii functional and the linear matrix inequality (LMI). Numerical examples are given to demonstrate the validity of the theoretical results.

关键词： Linear matrix inequalities

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Numerical simulation of three-dimensional hypervelocity impact using smoothed particle hydrodynamics

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Binggong Xuebao/Acta Armamentarii 2012年第SUPPL.1期33卷 290-295页

作者： Jia, Bin Ma, Zhi-Tao Pang, Bao-Jun Zhang, Wei Department of Astronautics Engineering Harbin Institute of Technology Harbin 150080 Heilongjiang China Institute of Computational Mathematics and Scientific/Engineering Computing Chinese Academy of Sciences Beijing 100190 China

The searching of neighbor particles is the key to the computational efficiency of smoothed particle hydrodynamics (SPH). An algorithm of multi-level dynamic grid-linked list search was presented. All the background grids are squares or cubes with the side length of one level of grids being whole number times of the lower level. Only limited amount of memory was consumed to store dynamically the virtual coordinates of background grids and particles. The number of grid levels and the multiple of different levels of grid sizes can be selected optimization ally according to the particle number. The optimized values of grid parameters were obtained through verification of searching efficiency. The optimized results show that the searching efficiency is dominated directly by the number of grid levels and influenced by the multiple of different levels of grid sizes to a certain extent. The searching algorithm was validated by the simulation of two oblique hypervelocity impact examples.

关键词： computational efficiency

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