@Article{	  10.4137/bbi.s38193,
  Author	= {William L. Poehlman and Mats Rynge and Chris Branton and
		  D. Balamurugan and Frank A. Feltus},
  Journal	= {Bioinformatics and Biology Insights},
  Publisher	= {Libertas Academica},
  Title		= {OSG-GEM: Gene Expression Matrix Construction Using the
		  Open Science Grid},
  Year		= {2016},
  Month		= {08},
  Volume	= {10},
  URL		= {http://www.la-press.com/osg-gem-gene-expression-matrix-construction-using-the-open-science-gri-article-a5814},
  Pages		= {133--141},
  Abstract	= { High-throughput DNA sequencing technology has
		  revolutionized the study of gene expression while
		  introducing significant computational challenges for
		  biologists. These computational challenges include access
		  to sufficient computer hardware and functional data
		  processing workflows. Both these challenges are addressed
		  with our scalable, open-source Pegasus workflow for
		  processing high-throughput DNA sequence datasets into a
		  gene expression matrix (GEM) using computational resources
		  available to U.S.-based researchers on the Open Science
		  Grid (OSG). We describe the usage of the workflow
		  (OSG-GEM), discuss workflow design, inspect performance
		  data, and assess accuracy in mapping paired-end sequencing
		  reads to a reference genome. A target OSG-GEM user is
		  proficient with the Linux command line and possesses basic
		  bioinformatics experience. The user may run this workflow
		  directly on the OSG or adapt it to novel computing
		  environments. },
  DOI		= {10.4137/BBI.S38193}
}

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