000002707 001__ 2707
000002707 005__ 20260120144901.0
000002707 0247_ $$2DOI$$a10.6083/M4DJ5CZ2
000002707 037__ $$aETD
000002707 245__ $$aDetecting and analyzing genomic structural variation using distributed computing
000002707 269__ $$a2014
000002707 336__ $$aDissertation
000002707 502__ $$bPh.D.
000002707 502__ $$gComputer Science & Electrical Engineering (sunsetting)
000002707 520__ $$aGenomic structural variations are an important class of genetic variants with a wide va- riety of functional impacts. The detection of structural variations using high-throughput short-read sequencing data is a difficult problem, and published algorithms do not pro- vide the sensitivity and specificity required in research and clinical settings. Meanwhile, high-throughput sequencing is rapidly generating ever-larger data sets, necessitating the development of algorithms that can provide results rapidly and scale to use cloud and cluster infrastructures. MapReduce and Hadoop are becoming a standard for managing the distributed processing of large data sets, but existing structural variation detection approaches are difficult to translate into the MapReduce framework. We have formulated a general framework for structural variation detection in MapReduce, and implemented a software package called Cloudbreak, which detects genomic deletions and insertions with very high accuracy compared to existing popular tools.
000002707 540__ $$fCC BY
000002707 542__ $$fIn copyright - single owner
000002707 650__ $$aComputational Biology$$031511
000002707 650__ $$aMachine Learning$$011449
000002707 650__ $$aArtificial Intelligence$$015109
000002707 650__ $$aGenomics$$033016
000002707 650__ $$aGenomic Structural Variation$$038764
000002707 691__ $$aSchool of Medicine$$041369
000002707 692__ $$aCenter for Spoken Language Understanding$$041388
000002707 7001_ $$aWhelan, Christopher$$uOregon Health and Science University$$041354
000002707 7201_ $$aSönmez, Kemal$$uOregon Health and Science University$$041354$$7Personal$$eAdvisor
000002707 8564_ $$9d5fa625e-1b28-425c-8049-f261313db7fc$$s3742101$$uhttps://digitalcollections.ohsu.edu/record/2707/files/3482_etd.pdf$$ePublic$$2696cc8eadc814c7a2344b2d80481a51d$$31
000002707 905__ $$a/rest/prod/js/95/6f/97/js956f97k
000002707 909CO $$ooai:digitalcollections.ohsu.edu:2707$$pstudent-work
000002707 956__ $$aGet Accessible Copy$$uhttps://ohsu.libwizard.com/f/requestaccessibledocument
000002707 980__ $$aTheses and Dissertations