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Not applicable No embargo required Not applicable No embargo required No Embargo Required Baranov, Pavel V. O'Connor, Patrick Science Foundation Ireland 2018-02-09T12:07:46Z 2018-02-09T12:07:46Z 2017 2017 Ribosome 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. Not peer reviewed Accepted Version application/pdf O'Connor, P. 2017. A study of mRNA translation with computational analysis of ribosome profiling datasets. PhD Thesis, University College Cork. 183 https://hdl.handle.net/10468/5431 en University College Cork © 2017, Patrick O'Connor. http://creativecommons.org/licenses/by-nc-nd/3.0/ Translation Ribosome profiling false A study of mRNA translation with computational analysis of ribosome profiling datasets Doctoral thesis Doctoral PhD (Science) p.baranov@ucc.ieinfo:eu-repo/semantics/openAccess