Enabling data and compute intensive workflows in bioinformatics

Gaurang Mehta, Ewa Deelman, James A. Knowles, Ting Chen, Ying Wang, Jens Vöckler, Steven Buyske, Tara Matise

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Scopus citations

Abstract

Accelerated growth in the field of bioinformatics has resulted in large data sets being produced and analyzed. With this rapid growth has come the need to analyze these data in a quick, easy, scalable, and reliable manner on a variety of computing infrastructures including desktops, clusters, grids and clouds. This paper presents the application of workflow technologies, and, specifically, Pegasus WMS, a robust scientific workflow management system, to a variety of bioinformatics projects from RNA sequencing, proteomics, and data quality control in population studies using GWAS data.

Original languageEnglish (US)
Title of host publicationEuro-Par 2011
Subtitle of host publicationParallel Processing Workshops - CCPI, CGWS, HeteroPar, HiBB, HPCVirt, HPPC, HPSS, MDGS, ProPer, Resilience, UCHPC, VHPC, Revised Selected Papers
PublisherSpringer Verlag
Pages23-32
Number of pages10
EditionPART 2
ISBN (Print)9783642297397
DOIs
StatePublished - 2012
Event17th Parallel Processing Workshops, Euro-Par 2011: CCPI 2011, CGWS 2011, HeteroPar 2011, HiBB 2011, HPCVirt 2011, HPPC 2011, HPSS 2011, MDGS 2011, ProPer 2011, Resilience 2011, UCHPC 2011, VHPC 2011 - Bordeaux, France
Duration: Aug 29 2011Sep 2 2011

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
NumberPART 2
Volume7156 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other17th Parallel Processing Workshops, Euro-Par 2011: CCPI 2011, CGWS 2011, HeteroPar 2011, HiBB 2011, HPCVirt 2011, HPPC 2011, HPSS 2011, MDGS 2011, ProPer 2011, Resilience 2011, UCHPC 2011, VHPC 2011
Country/TerritoryFrance
CityBordeaux
Period8/29/119/2/11

All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Keywords

  • bioinformatics
  • epigenetics
  • proteomics
  • sequencing
  • workflows

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