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Grid Computing in Life Science

First International Workshop on Life Science Grid, LSGRID 2004 Kanazawa, Japan, May 31-June 1, 2004, Revised Selected and Invited Papers

  • Conference proceedings
  • © 2005

Overview

Editors:
  1. Akihiko Konagaya

    1. Advanced Genome Information Technology Research Group, Bioknowledge Federation Research Team, RIKEN Genomic Science Center (GSC),  

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  2. Kenji Satou

    1. Institute for Bioinformatics Research and Development (BIRD), Japan Science and Technology Agency (JST), Japan

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    You can also search for this editor in PubMed   Google Scholar

Part of the book series: Lecture Notes in Computer Science (LNCS, volume 3370)

Part of the book sub series: Lecture Notes in Bioinformatics (LNBI)

Included in the following conference series:

Conference proceedings info: LSGRID 2004.

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Table of contents (15 papers)

  1. Front Matter

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  2. Life Science Grid

    1. Gene Trek in Procaryote Space Powered by a GRID Environment

      • Hideaki Sugawara
      Pages 1-7

    2. An Integrated System for Distributed Bioinformatics Environment on Grids

      • Kenji Satou, Yasuhiko Nakashima, Shin’ichi Tsuji, Xavier Defago, Akihiko Konagaya
      Pages 8-19

    3. Distributed Cell Biology Simulations with E-Cell System

      • Masahiro Sugimoto, Kouichi Takahashi, Tomoya Kitayama, Daiki Ito, Masaru Tomita
      Pages 20-31

    4. The Architectural Design of High-Throughput BLAST Services on OBIGrid

      • Fumikazu Konishi, Akihiko Konagaya
      Pages 32-42

    5. Heterogeneous Database Federation Using Grid Technology for Drug Discovery Process

      • Yukako Tohsato, Takahiro Kosaka, Susumu Date, Shinji Shimojo, Hideo Matsuda
      Pages 43-52

    6. Grid Portal Interface for Interactive Use and Monitoring of High-Throughput Proteome Annotation

      • Atif Shahab, Danny Chuon, Toyotaro Suzumua, Wilfred W. Li, Robert W. Byrnes, Kouji Tanaka et al.
      Pages 53-67

    7. Grid Workflow Software for a High-Throughput Proteome Annotation Pipeline

      • Adam Birnbaum, James Hayes, Wilfred W. Li, Mark A. Miller, Peter W. Arzberger, Phililp E. Bourne et al.
      Pages 68-81

    8. Genome-Wide Functional Annotation Environment for Thermus thermophilus in OBIGrid

      • Akinobu Fukuzaki, Takeshi Nagashima, Kaori Ide, Fumikazu Konishi, Mariko Hatakeyama, Shigeyuki Yokoyama et al.
      Pages 82-91

    9. Parallel Artificial Intelligence Hybrid Framework for Protein Classification

      • Martin Chew Wooi Keat, Rosni Abdullah, Rosalina Abdul Salam
      Pages 92-102

    10. Parallelization of Phylogenetic Tree Inference Using Grid Technologies

      • Yo Yamamoto, Hidemoto Nakada, Hidetoshi Shimodaira, Satoshi Matsuoka
      Pages 103-116

    11. EMASGRID: An NBBnet Grid Initiative for a Bioinformatics and Computational Biology ServicesInfrastructure in Malaysia

      • Mohd Firdaus Raih, Mohd Yunus Sharum, Raja Murzaferi Raja Moktar, Mohd Noor Mat Isa, Ng Lip Kian, Nor Muhammad Mahadi et al.
      Pages 117-124

    12. Development of a Grid Infrastructure for Functional Genomics

      • Richard Sinnott, Micha Bayer, Derek Houghton, David Berry, Magnus Ferrier
      Pages 125-139

    13. Building a Biodiversity GRID

      • Andrew C. Jones, Richard J. White, W. Alex Gray, Frank A. Bisby, Neil Caithness, Nick Pittas et al.
      Pages 140-151

    14. Mega Process Genetic Algorithm Using Grid MP

      • Yoshiko Hanada, Tomoyuki Hiroyasu, Mitsunori Miki, Yuko Okamoto
      Pages 152-170

    15. “Gridifying” an Evolutionary Algorithm for Inference of Genetic Networks Using the Improved GOGA Framework and Its Performance Evaluation on OBI Grid

      • Hiroaki Imade, Naoaki Mizuguchi, Isao Ono, Norihiko Ono, Masahiro Okamoto
      Pages 171-186

  3. Back Matter

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  1. Grid Computing in Life Science

Keywords

About this book

Researchers in the ?eld of life sciences rely increasingly on information te- nology to extract and manage relevant knowledge. The complex computational and data management needs of life science research make Grid technologies an attractive support solution. However, many important issues must be addressed before the Life Science Grid becomes commonplace. The 1st International Life Science Grid Workshop (LSGRID 2004) was held in Kanazawa Japan, May 31–June 1, 2004. This workshop focused on life s- ence applications of grid systems especially for bionetwork research and systems biology which require heterogeneous data integration from genome to phenome, mathematical modeling and simulation from molecular to population levels, and high-performance computing including parallel processing, special hardware and grid computing. Fruitful discussions took place through 18 oral presentations, including a keynote address and ?ve invited talks, and 16 poster and demonstration p- sentations in the ?elds of grid infrastructure for life sciences, systems biology, massive data processing, databases and data grids, grid portals and pipelines for functional annotation, parallel and distributed applications, and life science grid projects. The workshop emphasized the practical aspects of grid techno- gies in terms of improving grid-enabled data/information/knowledge sharing, high-performance computing, and collaborative projects. There was agreement among the participants that the advancement of grid technologies for life science research requires further concerted actions and promotion of grid applications. We therefore concluded the workshop with the announcement of LSGRID 2005.

Editors and Affiliations

  • Advanced Genome Information Technology Research Group, Bioknowledge Federation Research Team, RIKEN Genomic Science Center (GSC),  

    Akihiko Konagaya

  • Institute for Bioinformatics Research and Development (BIRD), Japan Science and Technology Agency (JST), Japan

    Kenji Satou

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