Ebook: 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

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.

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This book constitutes the thoroughly refereed postproceedings of the First International Life Science Grid Workshop, LSGRID 2004, held in Kanazawa, Japan in May/ June 2004.

The 10 revised full papers and 5 invited papers presented were carefully selected and went through two rounds of reviewing and revision. Among the topics addressed are grid environment for bioinformatics, grid architectures, database federation, proteome annotation, grid workflow software, functional genome annotation, protein classification, tree inference, parallel computing, high performance computing, grid infrastructures, functional genomics, and evolutionary algorithms.

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This book constitutes the thoroughly refereed postproceedings of the First International Life Science Grid Workshop, LSGRID 2004, held in Kanazawa, Japan in May/ June 2004.

The 10 revised full papers and 5 invited papers presented were carefully selected and went through two rounds of reviewing and revision. Among the topics addressed are grid environment for bioinformatics, grid architectures, database federation, proteome annotation, grid workflow software, functional genome annotation, protein classification, tree inference, parallel computing, high performance computing, grid infrastructures, functional genomics, and evolutionary algorithms.

Content:
Front Matter....Pages -
Gene Trek in Procaryote Space Powered by a GRID Environment....Pages 1-7
An Integrated System for Distributed Bioinformatics Environment on Grids....Pages 8-19
Distributed Cell Biology Simulations with E-Cell System....Pages 20-31
The Architectural Design of High-Throughput BLAST Services on OBIGrid....Pages 32-42
Heterogeneous Database Federation Using Grid Technology for Drug Discovery Process....Pages 43-52
Grid Portal Interface for Interactive Use and Monitoring of High-Throughput Proteome Annotation....Pages 53-67
Grid Workflow Software for a High-Throughput Proteome Annotation Pipeline....Pages 68-81
Genome-Wide Functional Annotation Environment for Thermus thermophilus in OBIGrid....Pages 82-91
Parallel Artificial Intelligence Hybrid Framework for Protein Classification....Pages 92-102
Parallelization of Phylogenetic Tree Inference Using Grid Technologies....Pages 103-116
EMASGRID: An NBBnet Grid Initiative for a Bioinformatics and Computational Biology ServicesInfrastructure in Malaysia....Pages 117-124
Development of a Grid Infrastructure for Functional Genomics....Pages 125-139
Building a Biodiversity GRID....Pages 140-151
Mega Process Genetic Algorithm Using Grid MP....Pages 152-170
“Gridifying” an Evolutionary Algorithm for Inference of Genetic Networks Using the Improved GOGA Framework and Its Performance Evaluation on OBI Grid....Pages 171-186
Back Matter....Pages -

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This book constitutes the thoroughly refereed postproceedings of the First International Life Science Grid Workshop, LSGRID 2004, held in Kanazawa, Japan in May/ June 2004.

The 10 revised full papers and 5 invited papers presented were carefully selected and went through two rounds of reviewing and revision. Among the topics addressed are grid environment for bioinformatics, grid architectures, database federation, proteome annotation, grid workflow software, functional genome annotation, protein classification, tree inference, parallel computing, high performance computing, grid infrastructures, functional genomics, and evolutionary algorithms.

Content:
Front Matter....Pages -
Gene Trek in Procaryote Space Powered by a GRID Environment....Pages 1-7
An Integrated System for Distributed Bioinformatics Environment on Grids....Pages 8-19
Distributed Cell Biology Simulations with E-Cell System....Pages 20-31
The Architectural Design of High-Throughput BLAST Services on OBIGrid....Pages 32-42
Heterogeneous Database Federation Using Grid Technology for Drug Discovery Process....Pages 43-52
Grid Portal Interface for Interactive Use and Monitoring of High-Throughput Proteome Annotation....Pages 53-67
Grid Workflow Software for a High-Throughput Proteome Annotation Pipeline....Pages 68-81
Genome-Wide Functional Annotation Environment for Thermus thermophilus in OBIGrid....Pages 82-91
Parallel Artificial Intelligence Hybrid Framework for Protein Classification....Pages 92-102
Parallelization of Phylogenetic Tree Inference Using Grid Technologies....Pages 103-116
EMASGRID: An NBBnet Grid Initiative for a Bioinformatics and Computational Biology ServicesInfrastructure in Malaysia....Pages 117-124
Development of a Grid Infrastructure for Functional Genomics....Pages 125-139
Building a Biodiversity GRID....Pages 140-151
Mega Process Genetic Algorithm Using Grid MP....Pages 152-170
“Gridifying” an Evolutionary Algorithm for Inference of Genetic Networks Using the Improved GOGA Framework and Its Performance Evaluation on OBI Grid....Pages 171-186
Back Matter....Pages -
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