Mapping the genomic distribution of RNA : DNA hybrids
Abstract/Contents
- Abstract
- R-loops are three-stranded nucleic acid structures consisting of an RNA-DNA hybrid and a displaced single strand of DNA, formed when single stranded RNA invades double stranded DNA. They are typically thought to form during transcription, when nascent mRNA pairs with its template. R-loops have recently been implicated both in aiding certain genomic processes, and in causing DNA damage within certain contexts. Possibly due to this tendency to cause damage, a variety of cellular mechanisms prevent R-loops from forming, or resolve them once formed. These resolution mechanisms maintain a constant turnover of R-loops in a cell, making them dynamic structures whose levels are subject to change within different cell types or during different growth conditions. Thus, to understand the biology of these structures, it is critical to understand where they form at any given point in time. A variety of next-generation sequencing techniques have been developed to map genomic RNA:DNA hybrids. All together, this work shows new insights into R-loop biology that have been gained from next-generation sequencing approaches, reviews these approaches, and provides a new technique that addresses a major challenge in the field. In particular, as more R-loop perturbations are tried, we hope that this last technique will be useful in providing accurate, quantitative and interpretable results about where and how R-loops are changing
Description
| Type of resource | text |
|---|---|
| Form | electronic resource; remote; computer; online resource |
| Extent | 1 online resource |
| Place | California |
| Place | [Stanford, California] |
| Publisher | [Stanford University] |
| Copyright date | 2019; ©2019 |
| Publication date | 2019; 2019 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Author | Bocek, Michael Joseph |
|---|---|
| Degree supervisor | Cimprich, Karlene |
| Thesis advisor | Cimprich, Karlene |
| Thesis advisor | Curtis, Christina |
| Thesis advisor | Jarosz, Daniel |
| Thesis advisor | Wysocka, Joanna, Ph. D |
| Degree committee member | Curtis, Christina |
| Degree committee member | Jarosz, Daniel |
| Degree committee member | Wysocka, Joanna, Ph. D |
| Associated with | Stanford University, Cancer Biology Program. |
Subjects
| Genre | Theses |
|---|---|
| Genre | Text |
Bibliographic information
| Statement of responsibility | Michael Joseph Bocek |
|---|---|
| Note | Submitted to the Cancer Biology Program |
| Thesis | Thesis Ph.D. Stanford University 2019 |
| Location | electronic resource |
Access conditions
- Copyright
- © 2019 by Michael Joseph Bocek
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
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