A Cloud Infrastructure for Optimization of a Massive Parallel Sequencing Workflow

Massive Parallel Sequencing is a term used to describe several revolutionary approaches to DNA sequencing, the so-called Next Generation Sequencing technologies. These technologies generate millions of short sequence fragments in a single run and can be used to measure levels of gene expression and...

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Bibliographic Details
Main Authors: Terzo, Olivier, Mossucca, Lorenzo, Acquaviva, Andrea, Abate, Francesco, Provenzano, Rosalba
Format: Conference Proceeding
Language:English
Subjects:
Bioinformatics
Cloud computing
Computer architecture
Computer systems organization
Computer systems organization > Architectures
Computer systems organization > Architectures > Distributed architectures
DNA
Genomics
grid computing
hybrid architecture
massive parallel sequencing
next generation sequencing
Optimization
Software and its engineering
Software and its engineering > Software organization and properties
Software and its engineering > Software organization and properties > Software system structures
Software and its engineering > Software organization and properties > Software system structures > Distributed systems organizing principles
virtual environment
Online Access:Request full text
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Summary:Massive Parallel Sequencing is a term used to describe several revolutionary approaches to DNA sequencing, the so-called Next Generation Sequencing technologies. These technologies generate millions of short sequence fragments in a single run and can be used to measure levels of gene expression and to identify novel splice variants of genes allowing more accurate analysis. The proposed solution provides novelty on two fields, firstly an optimization of the read mapping algorithm has been designed, in order to parallelize processes, secondly an implementation of an architecture that consists of a Grid platform, composed of physical nodes, a Virtual platform, composed of virtual nodes set up on demand, and a scheduler that allows to integrate the two platforms.
DOI:10.1109/CCGrid.2012.91