About this class
Overview and goal
 “Computational Science” analyzes various complicated phenomena and predicts future, using supercomputers. This area is now drawing attention as “the Third Scientific Approach,” which follows theoretical and experimental traditional approach. Computational science is helpful for problem solving in a wide variety of fields such as space or earth physics, life science, chemistry, dynamics, mathematical problems, visualization of results of computation, and so on.
 In this class, a frontline researcher in each field plainly explains a case study in applied field of computational science in an omnibus style. The case study reveals what kind of problems the cuttingedge research in computational science tries to solve or what kind of world it is developing. Students in the class can understand the interest and usefulness of computational science in various fields.
 Graduate students can also attend this class. (Ask each office of the affiliation about the credit.)
Class schedule and content (They might be changed.)
No.  Date  Instructor  Affiliation  Theme  Class content  

The first semester  1  April, 11  Satoru Ushijima  Academic Center for Computing and Media Studies  Fluid dynamics and highperformance computing  Due to the development of highperformance computing, the computational fluid dynamics (CFD) allows us to predict more complicated and largerscale fluid motions in detail. In this class, we explain some basic topics regarding fluid mechanics for the incompressible fluid such as water flows in rivers and coastal areas. In addition, we introduce the outline of numerical procedures to solve a set of governing equations with the recent supercomputers. We also demonstrate the simulated results, such as the freesurface motions and fluidstructure interactions. 
2  April, 18  Takeshi Enomoto  Disaster Prevention Research Institute  Supercomputing in Numerical Weather Prediction  Weather reports are produced daily from numerical weather prediction (NWP) using a supercomputer. NWP is the world’s second application of computation with the first computer ENIAC after missile trajectory. Since then NWP has remarkably developed: the accuracy of current fiveday forecast is comparable to that of twoday forecast in a quarter of a century ago. In order to predict the future state of the atmosphere, the initial state (analysis) produced from observations and a forecast model based on the physical laws are required. In this lecture the overview of the analysis and forecast is given and the role of supercomputing is illustrated.  
3  April, 25  Takashi Miura  Graduate School of Medicine  Computational Deveopmental Biology  Our body has very complex form. This complex form is generated during development. Numerous molecules has been shown to be involved in this process. However, how the interaction of these molecules results in complex pattern formation remain to be elucidated. In this lecture I present one strategy to utilize mathematical analysis and numerical simulation to understand the pattern formation during development.  
4  May, 2  Hiroshi Nakajima  Academic Center for Computing and Media Studies  Why are Supercomputers Super?  In this lecture, you will learn the concept of supercomputers and supercomputing through the history, architectural principles and most advanced examples of supercomputers.  
5  May ,9  Ryoichi Yamamoto  Graduate School of Engineering  a challenge simulation science: mesoscale material science  After rapid progresses of computer and computational science are outlined, recent efforts and applications of computational science for soft matters (polymers, colloids, gels, membranes) are explained.  
6  May ,16  Tatsuya Akutsu  Institute for Chemical Research  Computational Science in Bioinformatics  Highperformance computing has been extensively used for solving various problems in bioinformatics, which include sequence analysis, prediction of protein structures, analysis of gene expression data. We overview how highperformance computing is used in bioinformatics.  
7  May, 23  Kazuhiro Aoki  Graduate School of Biostudies  Visualization and simulation of cellular signal processing.  Cells sense a variety of extracellular signals by receptors, and input these signals to a system of intracellular reaction network. This system is called intracellular signal transduction. These input signals are processed by the intracellular signal transduction, and outputted as their corresponding phenotypes. So far, a bunch of molecules and pathways have been identified as shown here. We know that disruption of the system by gene mutation leads to pathological outcome including autoimmune disease and tumorigenesis. Therefore, a better understanding of signal transduction is a critical issue for control of these diseases. Reactions composed of intracellular signal transduction can be described by reaction kinetics theory and solved numerically by computer. In this class, I will introduce several examples of application of computer to systems biology.  
8  May, 30  Shinichi Takehiro  Research Institute for Mathematical Sciences  Consideration of fluid motions in the interiors of the earth, planets and stars by use of numerical computations  The problem of thermal convection in rotating spherical shells is a fundamental model for global flows in the interiors of the earth, planets and stars. It is explained how this problem comes to be solved according to development of computational ability, and the status of the present numerical simulations is discussed.  
9  June, 6  Jun Saito  Graduate school of engineering  Numerical analysis of Photonic and phononic crystal  Wave transmission property in Photonic and phononic crystal and its application are outlined, and some numerical results are introduced.  
10  June, 13  Ryoichi Kurose  Graduate school of engineering  The Role fo Computational Fluid Dynamics  The procedure and challenges of Computational Fluid Dynamics (CFD) will be reviewed and some examples of the CFD for research and development will be described.  
11  June, 20  Hiroshi NAKASHIMA  Graduate School of Agriculture  Running mechanics for offroad vehicles  Numerical analysis for performances of rigid and elastic wheels for offroad vehicles running on deformable terrain will be demonstrated using DEM and FEDEM.  
12  June, 27  SATO Hirofumi  Graduate school of engineering  Theoretical Studies on Chemical Phenomenon and Chemical Reaction  The lecture overviews the role of theories in the field of chemistry. Electronic structure theory of molecule (molecular orbital theory), statistical mechanics and other related approaches have been contributing to understand a variety of chemical events.  
13  July, 4  Takeshi YAO  Graduate School of Energy Science  Principle and Application of Least Square Method  Measurement is the only and important medium to contact with nature, however, measurement always contains error. We are using the least square method to make the scientific truth hiding behind the measurement clear. Principle and computer program of the liner or the nonlinear least square method, estimation of error and reliability of obtained parameters are explained. Crystal structure analysis is introduced as an application of the least square method.  
14  June ,18  Koji Koyamada  Center for the Promotion of Excellence in Higher Education  Introduction to visualization  Visualization becomes crucial as a fundamental technology which facilitates an inspiration from a massive amount of datasets generated from highperformance computing and measurement platforms. In this lecture, we will describe basic visualization techniques and their applications.  
15  July, 25  Hideki Yahagi  Academic Center for Computing and Media Studies  Computer Science and Astronomy  In astronomy, observational data had not been explained by theories due to intrinsic complexity of those problems and lack of feasibility of experiments, in many cases. Such situations has changed by large scale numerical simulations thanks to the rapid evolution of supercomputing systems. We introduce such astronomical cases to the audience.  
The second semester  1  Oct. ,3  Satoru Ushijima  Academic Center for Computing and Media Studies  Fluid dynamics and highperformance computing  Due to the development of highperformance computing, the computational fluid dynamics (CFD) allows us to predict more complicated and largerscale fluid motions in detail. In this class, we explain some basic topics regarding fluid mechanics for the incompressible fluid such as water flows in rivers and coastal areas. In addition, we introduce the outline of numerical procedures to solve a set of governing equations with the recent supercomputers. We also demonstrate the simulated results, such as the freesurface motions and fluidstructure interactions. 
2  Oct. ,10  Takashi Miura  Graduate School of Medicine  Computational Deveopmental Biology  Our body has very complex form. This complex form is generated during development. Numerous molecules has been shown to be involved in this process. However, how the interaction of these molecules results in complex pattern formation remain to be elucidated. In this lecture I present one strategy to utilize mathematical analysis and numerical simulation to understand the pattern formation during development.  
3  Oct. ,17  Hiroshi Nakashima  Academic Center for Computing and Media Studies  Why are Supercomputers Super?  In this lecture, you will learn the concept of supercomputers and supercomputing through the history, architectural principles and most advanced examples of supercomputers.  
4  Oct. ,24  Kazuro Hirahara  Graduate School of Science  Simulation of earthquake cycles  Great earthquakes occur iteratively on plate interfaces with recurrence times due to plate motions, which we call earthquake cycles. In a supercomputer, we construct the Japanese Islands where the four plates are conversing to simulate such cycles of interplate earthquakes. We introduce recent advancements in such earthquake cycle simulations, which helps us to understand the occurrence of historical earthquakes such as the 2011 giant Tohoku earthquake and would also give some information on the next occurring earthquakes such as the Nankai earthquake.  
5  Oct. ,31  Jun Saito  Graduate school of engineering  Numerical analysis of Photonic and phononic crystal  Wave transmission property in Photonic and phononic crystal and its application are outlined, and some numerical results are introduced.  
6  Nov. ,7  Keiichi Ishioka  Graduate School of Science  Computations in Geophysical Fluid Dynamic  Geophysical Fluid Dynamics(GFD) includes not only meteorology and ocean physics but also mantle convection and core dynamo. Numerical experimets using computers are necessary for reserches of GFD. This lecture introduces briefly how computers are used in researches of GFD.  
7  Nov. ,14  Tatsuya Akutsu  Institute for Chemical Research  Computational Science in Bioinformatics  Highperformance computing has been extensively used for solving various problems in bioinformatics, which include sequence analysis, prediction of protein structures, analysis of gene expression data. We overview how highperformance computing is used in bioinformatics.  
8  Nov. ,21  Hisashi Okamoto  Research Institute for Mathematical Sciences  非線形力学入門  身近な力学現象、特に、水の流れや表面張力の生み出す物理現象のモデル化とその数値計算法について解説する。  
9  Nov. ,28  Sayuri Kimoto  Graduate School of Engineering  Simulation of ground deformation  Geomaterials such as soil and rock are three phase materials composed of gas, liquid and solid in general, and the mechanical behavior is complicated. Simulation method to predict the ground deformation induced by natural disaster, such as, heavy rain and earthquake will be introduced in this class. In addition, simulation of the ground behavior during methane hydrate dissociation will be presented. 

10  Dec. ,5  Hiroshi NAKASHIMA  Graduate School of Agriculture  Running mechanics for offroad vehicles  Numerical analysis for performances of rigid and elastic wheels for offroad vehicles running on deformable terrain will be demonstrated using DEM and FEDEM.  
11  Dec. ,12  Ryoichi Kurose  Graduate school of engineering  The Role fo Computational Fluid Dynamics  The procedure and challenges of Computational Fluid Dynamics (CFD) will be reviewed and some examples of the CFD for research and development will be described.  
12  Dec. ,19  SATO Hirofumi  Graduate school of engineering  Theoretical Studies on Chemical Phenomenon and Chemical Reaction  The lecture overviews the role of theories in the field of chemistry. Electronic structure theory of molecule (molecular orbital theory), statistical mechanics and other related approaches have been contributing to understand a variety of chemical events.  
13  Dec. ,26  Takeshi YAO  Graduate School of Energy Science  Principle and Application of Least Square Method  Measurement is the only and important medium to contact with nature, however, measurement always contains error. We are using the least square method to make the scientific truth hiding behind the measurement clear. Principle and computer program of the liner or the nonlinear least square method, estimation of error and reliability of obtained parameters are explained. Crystal structure analysis is introduced as an application of the least square method.  
14  Jan. ,16  Koji Koyamada  Center for the Promotion of Excellence in Higher Education  Introduction to visualization  Visualization becomes crucial as a fundamental technology which facilitates an inspiration from a massive amount of datasets generated from highperformance computing and measurement platforms. In this lecture, we will describe basic visualization techniques and their applications.  
15  Jan. ,23  Kinji Kimura  Graduate School of Informatics  Computing the longest polynomial in the world – Challenge to the world record of discriminant – 
We introduce the story of the challenges of discriminant 17. 
Prerequisite
None
Preliminary knowledge
Any student who has no preliminary knowledge can attend this class, whether majoring in science or humanities.
Grading
The instructor of each class assesses how much the student understands the class content, based on a report or paper submitted.
Textbook
None
Reference book
Each instructor recommends when necessary.
Class information
Class Name  Introduction to Computational Science 

Group  Group B 
Credits  2 
Semester  the first semester, the second semester（same as the first one） 
Frequency per week  1 
Class type  Lecture 
Student Year  All 
Department  All 
Day and period  Wednesday・5th period 
Classroom  South Building Room202, Academic Center for Computing and Media Studies, Kyoto University 