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HECTOR: Enabling Microarray Experiments over the Hellenic Grid Infrastructure

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HECTOR: Enabling Microarray Experiments over the Hellenic Grid Infrastructure
Kanaris, Ioannis
Mylonakis, Vasileios
Maglogiannis, Ilias
Soldatos, John
Χατζηιωάννου, Αριστοτέλης
Άρθρο σε επιστημονικό περιοδικό
2009-09
Biologists, medical experts, biochemical engineers and researchers working on DNA microarray experiments are increasingly turning on Grid computing with the scope of leveraging the Grid's computing power, immense storage resources, and quality of service to the expedient processing of a wide range of datasets. In this paper we present a combined experience of grid application experts and bioinformatics scientists in deploying a pilot service enabling computationally efficient processing and analysis of data stemming from microarray experiments. This pilot service is accessible over the Hellenic portion of the EGEE grid and has been demonstrated in the scope of several public events. We highlight the process of grid application enablement, grid deployment challenges, as well as lessons learnt from a bi-annual effort to port and deploy a MATLAB DNA microarray application on a production grid. In addition to describing the parallelization of the application, we also emphasize on the development of a distributed federated database for storing and post-processing the results of the microarray experiments. Overall we believe that our experience could be proven valuable not only to microarray data scientists but also to other Grid users that intend to Grid-enable and deploy their applications.
Dordrecht
Ηλεκτρονικοί υπολογιστές. Επιστήμη των υπολογιστών (EL)
Electronic computers. Computer science (EN)
Computer Science, Information Systems
Hellas grid
EGEE
MPI
Computer Science, Theory & Methods
Microarray experiments
gLite
Grid application enablement
English
Springer
Journal of Grid Computing
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© SPRINGER
© SPRINGER (EN)
National Hellenic Research Foundation (NHRF)
Helios - Repository of the National Hellenic Research Foundation (NHRF)



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