A study of mRNA translation with computational analysis of ribosome profiling datasets

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dc.check.embargoformatNot applicableen
dc.check.infoNo embargo requireden
dc.check.opt-outNot applicableen
dc.check.reasonNo embargo requireden
dc.check.typeNo Embargo Required
dc.contributor.advisorBaranov, Pavel V.en
dc.contributor.authorO'Connor, Patrick
dc.contributor.funderScience Foundation Irelanden
dc.date.accessioned2018-02-09T12:07:46Z
dc.date.available2018-02-09T12:07:46Z
dc.date.issued2017
dc.date.submitted2017
dc.description.abstractRibosome profiling is based on capturing and sequencing of the mRNA fragments enclosed within the translating ribosome and it thereby provides a “snapshot” of ribosome positions at the transcriptome wide level. The approach was developed in 2009 and was a significant advancement towards the better understanding of the regulation of protein synthesis. I this thesis I describe my analysis of ribosome profiling data. In Chapter 1, I present a review of the recent developments of understanding obtained with ribosome profiling as well as discussing the implications of artifacts on the interpretation of its data. Chapters 2 and 3 details using ribosome profiling to examine the translational response to eIF2 repression and to the deprivation of oxygen and glucose respectively. Chapter 4 details how the interaction of the Shine Dalgarno with the ribosome rRNA alters the length of the mRNA protected fragments. In Chapter 5, I present analysis at identifying the relative impact of mRNA features on local ribosome profiling read density.en
dc.description.statusNot peer revieweden
dc.description.versionAccepted Version
dc.format.mimetypeapplication/pdfen
dc.identifier.citationO'Connor, P. 2017. A study of mRNA translation with computational analysis of ribosome profiling datasets. PhD Thesis, University College Cork.en
dc.identifier.endpage183en
dc.identifier.urihttps://hdl.handle.net/10468/5431
dc.language.isoenen
dc.publisherUniversity College Corken
dc.rights© 2017, Patrick O'Connor.en
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/3.0/en
dc.subjectTranslationen
dc.subjectRibosome profilingen
dc.thesis.opt-outfalse
dc.titleA study of mRNA translation with computational analysis of ribosome profiling datasetsen
dc.typeDoctoral thesisen
dc.type.qualificationlevelDoctoralen
dc.type.qualificationnamePhD (Science)en
ucc.workflow.supervisorp.baranov@ucc.ie
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