BioSupercomputing Newsletter Vol.1

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Joint Workshop with VPH

Joint Workshop with VPH

In Europe, the EU's Virtual Physiological Human (VPH) Project is currently underway, led by Prof. Peter Kohl and Prof. Peter Covney. Prof. Kohl's project group visited Kyoto to attend the International Congress of Physiological Sciences held in July and on July 31, RIKEN's Wako Institute hosted a workshop to exchange information and discuss possibilities for future collaboration between his team and our Integrated Simulation of Living Matter Group. Prof. Kohl's group, consisting of researchers mostly from Oxford University in VPH, aims to contribute to medical science by modeling and simulating the entire heart.

The members who visited RIKEN for the workshop were Professors Kohl, Smith, Masindova and Quinn, as well as Professor Iribe of Okayama University, who until recently was a researcher at Oxford. The visiting group was shown RIKEN's testing equipment, which included a 3D internal structure microscope* and a tensile tester, as well as our new supercomputer RICC and 4D visualization system. The visitors showed particular interest in the 3D ISM and the supercomputer. The tour was followed by a meeting at which Dr. Kaya, Program Director, gave an overview of RIKEN and introduced projects run by both parties, while facilitating further understanding of each project through active discussion. As the discussion became too diffuse, covering a wide range of topics, we agreed that a subsequent meeting would be held in the U.K. (or a TV conference session) sometime around October and for interim communication to continue via e-mail to facilitate further review of each other's proposals. During the workshop, we explored areas for possible collaboration projects and long-term co-research themes. The participants from our group were Dr. Kaya, Program Director, Dr. Takagi, Leader of the Organ/Body Scale Team and its members, Prof. Matsuzawa of JAIST, Dr. Yokota, Leader of the Cell Scale Team and its members, staff from RIKEN's Advanced Center for Computing and Communication and the reporter, Ryutaro Himeno.

* The 3D-ISM takes continuous, cross-sectional pictures of a frozen biological sample in progressive slices, eventually creating a three-dimensional image of the entire sample piece. By combining a microscope and a laser, it is capable of taking images at ten micron resolution.

Joint Workshop with VPH

BioSupercomputing Newsletter Vol.1

INTRODUCTION
Computational Science Research Program Program Director Koji KAYA
SPECIAL INTERVIEW
Innovative Approach for Understanding Phenomena of Life Exploring New Possibilities with Bio-supercomputing
Computational Science Research Program Deputy Program Director Ryutaro HIMENO
A Message from the Team Leader
Simulations to Understand the Functions of the Biopolymers that Play Fundamental Roles in Life
Molecular Scale Team Team Leader Akinori KIDERA
Develop a 3-D Model of the Entire Human Body and Understand In Vivo Phenomena to Utilize for Medical Purposes
Organ and Body Scale Team Team Leader Shu TAKAGI
The Fourth Methodology (Data Analysis Fusion): Transforming Biology into a Predictable Science
Data Analysis Fusion Team Team Leader Satoru MIYANO
Report on Research
Prediction of Transmembrane Dimer Structure of Amyloid Precursor Protein using Replica-Exchange Molecular Dynamics Simulations
Molecular Scale Team Naoyuki MIYASHITA / RIKEN Advanced Science Institute (Molecular Scale WG) Yuji SUGITA
Simulation for Charged Particle Therapy
Organ and Body Scale Team Kenichi L. ISHIKAWA
Prospects of Prognostic Prediction Based on Genome-wide Association Study and Genetic/Non-genetic Factors
Riken Center for Genomic Medicine (Data Analysis Fusion WG) Naoyuki KAMATANI
Key Technology Supporting Petascale Computing
High-performance Computing Team Kenji ONO / Satoshi ITO / Daisuke WATANABE
ISLiM Participating Institutions / Administration
Joint Workshop with VPH
About Our Logo / Event Information / About the Cover Photo