Optimization of Filter Metrics for Mitochondrial DNA Sequence Analysis.

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dc.contributor.advisorPlanz, John V.
dc.creatorMusslewhite, Pamela
dc.date.accessioned2019-08-22T21:24:18Z
dc.date.available2019-08-22T21:24:18Z
dc.date.issued2009-08-01
dc.date.submitted2010-03-11T09:05:59-08:00
dc.description.abstractQuality metrics translate sequence information into numerical values which allows a software program to filter through data without human intervention. Primer specific settings for the trace score and contiguous read length in Sequence Scanner Software v1.0 (Applied Biosystems, Foster City, CA) were established using a calibration dataset of 2,817 sequence traces and validated using a second dataset of 5,617 sequence traces. Prior to optimization 51.7% of the samples required manual intervention while 28.4% require review after optimization. An evaluation of signal intensity and signal to noise ratio variables was performed and no trend was recognized for predictive modeling. Use of quality values per peak to ascertain confidence in the base call was evaluated and found to be a feasible parameter for sample quality assessment and confident base calling.
dc.format.mimetypeapplication/pdf
dc.identifier.urihttps://hdl.handle.net/20.500.12503/29307
dc.language.isoen
dc.provenance.legacyDownloads432
dc.subjectmitochondrial DNA
dc.subjectmtDNA
dc.subjectforensic science
dc.subjectquality value per base
dc.subjectprimer specific filter metrics
dc.subjectsequence quality
dc.titleOptimization of Filter Metrics for Mitochondrial DNA Sequence Analysis.
dc.typeInternship Practicum Report
dc.type.materialtext
thesis.degree.departmentGraduate School of Biomedical Sciences
thesis.degree.disciplineForensic Genetics
thesis.degree.grantorUniversity of North Texas Health Science Center at Fort Worth
thesis.degree.nameMaster of Science

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