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Kenji_Oman.final.dissertation.v2.pdf (4.15 MB)

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Nucleic Acid High-Throughput Sequencing Studies Present Unique Challenges in Analysis and Interpretation

Oman, Kenji
http://orcid.org/0000-0003-3449-3483
http://rave.ohiolink.edu/etdc/view?acc_num=osu1437681208

Abstract Details

2015, Doctor of Philosophy, Ohio State University, Physics.
From the discovery of nucleic acids, their significance as an information carrier in the cell, and with the development of high-throughput sequencing (HTS) techniques, molecular biology has seen ever-increasing developments in our understanding of the mechanisms of life. Here we first present a small overview of the progression of our understanding of nucleic acids, and current HTS techniques used to study them. We then investigate the interaction of methyl-binding-domain (MBD) with methylated DNA, as used in MethylCap-seq (a HTS technique), and present a model for their interaction, and a Bayesian model utilizing our increased understanding to predict methylation levels in samples with an unknown methylation profile. We next introduce a HTS analysis pipeline we have developed, and examine the use of this pipeline in the analysis of 5'-end seq data, ultimately leading to its abandonment. Finally, we present a further application of the pipeline in our investigation of LepA’s role in translation initiation and elongation in E. coli.
Ralf Bundschuh (Advisor)
Kurt Fredrick (Committee Member)
Richard Furnstahl (Committee Member)
Michael Poirier (Committee Member)
129 p.
Bioinformatics

Recommended Citations

Citations

  • Oman, K. (2015). Nucleic Acid High-Throughput Sequencing Studies Present Unique Challenges in Analysis and Interpretation [Doctoral dissertation, Ohio State University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=osu1437681208

    APA Style (7th edition)

  • Oman, Kenji. Nucleic Acid High-Throughput Sequencing Studies Present Unique Challenges in Analysis and Interpretation. 2015. Ohio State University, Doctoral dissertation. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=osu1437681208.

    MLA Style (8th edition)

  • Oman, Kenji. "Nucleic Acid High-Throughput Sequencing Studies Present Unique Challenges in Analysis and Interpretation." Doctoral dissertation, Ohio State University, 2015. http://rave.ohiolink.edu/etdc/view?acc_num=osu1437681208

    Chicago Manual of Style (17th edition)

osu1437681208
849
© 2015, all rights reserved.
This open access ETD is published by The Ohio State University and OhioLINK.