Computational Science Research Program, RIKEN
Yasuhiro Ishimine (Organ and Body Scale WG)
Research and Development Center for Data Assimilation, Institute of Statistical Mathematics
Masaya Saito (Data Analysis Fusion WG)
Niigata University of International and Information Studies
Eisuke Chikayama (Cell Scale WG)
School of Medicine, Tokai University
Yohei Nanazawa (Cell Scale/Organ and Body Scale WG)
Computational Science Research Program, RIKEN
Takashi Handa (Brain and Neural Systems WG)
Computational Science Research Program, RIKEN
Gen Masumoto (High-performance Computing Team)
Computational Science Research Program, RIKEN
Kei Moritsugu (Molecular Scale WG)
(In Japanese alphabetical order)

On September 26 and 27, 2011, the "Biosupercomputing Summer School 2011" was held at the Awaji Yumebutai International Conference Center in Awaji, Hyogo Prefecture. This is the third time as a young researchers' workshop planned and organized by research associates in the Next- Generation Integrated Simulation of Living Matter (ISLiM) project, following last year's summer school and winter school. This school was renamed in connection with the support from the "BioSuperComputing Research Community" (BSCRC).

The ten-petaflops supercomputing, "K computer", now being installed in Kobe, Hyogo Prefecture, was ranked number one in the world at TOP500 in this June. ISLiM is developing softwares for numerical simulation and massive data analysis for life science so that the K computer can achieve its full performance. This summer school was held to demonstrate what K computer is able to do and how it is able to contribute to life sciences, and then consisted of two sessions, "Computer and computational methodology" and "Application for life science". A total of 56 research associates in the project and graduate students from the associated research fields attended to have a close relationship with each other.

First, as keynote lectures, Prof.Koji Kaya, Director of the Next-Generation Computational Science Research Program, delivered a lecture about the history of the ISLiM project and its future prospects. Then, Prof. Ryutaro Himeno, Vice Director of the Next-Generation Computational Science Research Program, delivered a lecture on the current performance and status of the application softwares now being developed at ISLiM, and the future schedule for the usage of the K computer.

In the following "Application" session, Prof. Masahiro Kami, the Institute of Medical Science, University of Tokyo, gave a lecture as an invited speaker and the three members from the ISLiM teams talked on living matter softwares under development. Prof. Kami gave a talk from the viewpoint of a researcher as well as a clinician on genomic analysis, tailormade medical care, the doctor shortage problem, and his activity in Fukushima Prefecture hit by the Great East Japan Earthquake. It is a known fact for computational scientists that they must have data to analyze, but his point was impressive that it is important to collect data actually by way of extending the community of his own. Dr. Masaya Saito from the Data Analysis Fusion Team spoke about the analysis of the mammalian circadian cycle transcriptional network using LiSDAS, and introduced data assimilation library. Dr.Yasuhiro Sunaga from the Cell Scale Team introduced the Cell simulation integrated platform (RICS), and its applied research. Dr.Tomoki Kazawa from the Brain and Neural Systems Team told us about a bombycid olfactory and motor nerve systems simulation and real time imaging of nerve circuits.

In the subsequent banquet and poster session, there were 35 poster presentations participated, and debates on their present works went on until late at night. The poster award competition was held by the choices of five participating graduate students. Proposed by Prof. Himeno, debates were also made about the forthcoming "exascale computing".

In the "Computer" session on the second day, first Dr. Ikuo Miyoshi and Dr. Yoshinori Sugizaki, both from the PA project of the Next-Generation TC Development Section at FUJITSU, delivered keynote lectures as invited speakers. Then, the three members from the ISLiM teams talked about particle and fluid systems simulation and their high-performance computing techniques. Dr. Miyoshi described the hardware configuration and software development status of the K computer and Dr. Sugizaki explained tuning techniques with the help of simple and useful examples. In the subsequent question-and-answer session, we could obtain detailed understandings from the knowledge of the K computer developers. Dr. Yusuke Matsunaga from the Molecular Scale Team described Molecular Dynamics (MD) simulation, especially how to deal with long-range forces, and introduced the platypus-MM/CG under development. Dr. Yosuke Ohno from the High-performance Computing Team explained MD speed-up techniques particularly for short-range forces by giving useful examples with the K computer. Dr. Hitoshi Ii from the Organ and Body Scale Team spoke about the simulation of platelet thrombus formation by the Euler approach, and Dr. Hiroshi Koyama from the High-performance Computing Team delivered a lecture about the numerical errors in the solution of differential equations and why they appear.

Through the three ISLiM young researchers' workshops from last year, the initial goal to encourage exchanges of the ISLiM members between different teams seems to has been achieved. We expect that in the near future this kind of workshop will become an opportunity for creating a community of young researchers in the fields of simulation and massive data analysis in life sciences, together with the participants from the Advanced Institute for Computational Science and the HPCI program.