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A large-scale simulation in e-science experiments can be modeled by using a workflow. The ProGenGrid workflow management system is being developed at the University of Salento in Lecce since 2004 and consists of an editor for designing the experiment and an engine for scheduling the jobs in a computational grid. The initial version was based on wrapping the bioinformatics tools as Web services and...
In a growing number of scientific disciplines, large data collections are emerging as important community resources. Data and metadata management exploiting the data grid paradigm is becoming more and more important as the number of involved data sources is continuously increasing and decentralizing. Efficient grid data access services are perceived as mandatory components for data management. In...
Data grid management systems are becoming increasingly important in the context of the recently adopted service oriented science paradigm. The Grid Relational Catalog (GRelC) project is working towards ubiquitous, integrated, seamless and comprehensive data grid management solutions to fully address application specific requirements. This paper describes a GRelC based environment for bioinformatics...
With a growing trend towards grid-based data repositories and data analysis services, scientific data analysis often involves accessing multiple data sources, and analyzing the data using a variety of analysis programs. A strictly related critical challenge is the fact that data sources often hold the same type of data in a number of different formats; moreover, the formats expected and generated...
Increasingly, complex scientific applications are structured in terms of workflows. These applications are usually computationally and/or data intensive and thus are well suited for execution in grid environments. Distributed, geographically spread computing and storage resources are made available to scientists belonging to virtual organizations sharing resources across multiple administrative domains...
Production grids such as EGEE allow scientists and researchers using aggregated computational power and storage resources. Many users/virtual organizations (VOs) e.g., bioinformatics, astrophysics, etc., need relational databases for their experiments. However, the EGEE middleware (gLite) lacks ad hoc software, and other available solutions are not currently suitable for this purpose within a gLite...
This paper presents a data Grid system, built on top of specific biological data sources in flat file format, which carries out the ingestion into a relational DBMS that integrates these data. The prototype has been implemented for UniProtKB (located at EBI - European Bioinformatics Institute, UK) and UTRdb (located at ITB/CNR Bari, Italy) data banks owing to the following two reasons: a public available...
We present an integrated Grid system for the prediction of protein secondary structures, based on the frequent automatic update of proteins in the training set. The predictor model is based on a feed-forward multilayer perceptron (MLP) neural network which is trained with the back-propagation algorithm; the design reuses existing legacy software and exploits novel grid components. The predictor takes...
Currently several applications produce huge amount of data making them available for post-processing operations in order to infer new knowledge. Main issues of these applications are the need for efficient mechanisms to access data and high performance computing to obtain the results in an acceptable time. Wrapping the applications as Web services allows interoperability with others tools and in particular...
The paper defines an architecture that uses the satellite as a communication medium for efficient and reliable large file distribution across WANs, and so disseminate large files at multiple receivers in geographically dispersed grids, exploiting e SRDP protocol
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