A modified bump hunting approach with correlation-adjusted kernel weight for detecting differentially methylated regions on the 450K array

Hdl Handle:
http://hdl.handle.net/10675.2/621522
Title:
A modified bump hunting approach with correlation-adjusted kernel weight for detecting differentially methylated regions on the 450K array
Authors:
Daniel, Jeannie T
Abstract:
DNA methylation plays an important role in the regulation of gene expression, as hypermethylation is associated with gene silencing. The general purpose of this dissertation is the development of a statistical method, called DMR Detector, for detecting differentially methylated regions (DMRs) on the 450K array. DMR Detector makes three key modifications to an existing method called Bumphunter. The first is what statistic to collect from the initial fitting for further analysis. The second is to perform kernel smoothing under the assumption of correlated errors using a newly proposed correlation-adjusted kernel weight. The third is how to define regions of interest. In simulation, the method was shown to have high power comparable to Bumphunter, with consistently lower family-wise type I error rate, controlled well below the 0.1 FDR. DMR Detector was applied to real data and was able to detect one DMR that was not detected by Bumphunter.
Affiliation:
Department of Biostatistics and Epidemiology
Issue Date:
3-Aug-2017
URI:
http://hdl.handle.net/10675.2/621522
Type:
Dissertation
Description:
The file you are attempting to access is currently restricted to Augusta University. Please log in with your NetID if off campus. Record is embargoed until 8/3/2019
Appears in Collections:
Theses and Dissertations; Department of Biostatistics and Epidemiology Theses and Dissertations

Full metadata record

DC FieldValue Language
dc.contributor.authorDaniel, Jeannie T-
dc.date.accessioned2017-08-03T16:22:48Z-
dc.date.available2017-08-03T16:22:48Z-
dc.date.issued2017-08-03-
dc.identifier.urihttp://hdl.handle.net/10675.2/621522-
dc.descriptionThe file you are attempting to access is currently restricted to Augusta University. Please log in with your NetID if off campus. Record is embargoed until 8/3/2019en
dc.description.abstractDNA methylation plays an important role in the regulation of gene expression, as hypermethylation is associated with gene silencing. The general purpose of this dissertation is the development of a statistical method, called DMR Detector, for detecting differentially methylated regions (DMRs) on the 450K array. DMR Detector makes three key modifications to an existing method called Bumphunter. The first is what statistic to collect from the initial fitting for further analysis. The second is to perform kernel smoothing under the assumption of correlated errors using a newly proposed correlation-adjusted kernel weight. The third is how to define regions of interest. In simulation, the method was shown to have high power comparable to Bumphunter, with consistently lower family-wise type I error rate, controlled well below the 0.1 FDR. DMR Detector was applied to real data and was able to detect one DMR that was not detected by Bumphunter.-
dc.titleA modified bump hunting approach with correlation-adjusted kernel weight for detecting differentially methylated regions on the 450K array-
dc.typeDissertationen
dc.contributor.departmentDepartment of Biostatistics and Epidemiologyen
dc.language.rfc3066en-
dc.date.updated2017-08-03T16:22:48Z-
dc.description.advisorChen, Jieen
dc.description.committeeXu, Hongyan; Wang, Xiaoling; Ghosh, Santu; Linder, Daniel; Rao, Arni SR Srinivasaen
dc.description.degreeDoctor of Philosophy (Ph.D.)en
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