Ribonucleic acids in the microbiome
Abstract/Contents
- Abstract
- Much remains to be characterized and identified in the human microbiome, ranging from small proteins to RNAs that form secondary structures. Recent innovations in sequencing technologies and informatics approaches have enabled us to study the microbiome at many new levels of regulation. In this dissertation, I develop new methods and informatics pipelines to study protein synthesis and predict functional elements in the microbiome. Chapter 2 describes the development of MetaRibo-Seq, a technology that enables high-throughput study of translation in microbiomes and applies it to discover new small proteins. Chapter 3 addresses limitations of Ribo-Seq, the prevalence of contaminant Ribo-Seq signal across structured RNAs, and the likely source of such contamination. Chapter 4 describes a large-scale comparative genomics approach to reveal thousands of novel candidate structured RNAs. Overall, these chapters bring new technologies and resources to study small proteins and RNAs in the human microbiome.
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 | 2021; ©2021 |
| Publication date | 2021; 2021 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Author | Fremin, Brayon Joseph |
|---|---|
| Degree supervisor | Bhatt, Ami (Ami Siddharth) |
| Thesis advisor | Bhatt, Ami (Ami Siddharth) |
| Thesis advisor | Kundaje, Anshul, 1980- |
| Thesis advisor | Sherlock, Gavin |
| Thesis advisor | Urban, Alexander E |
| Degree committee member | Kundaje, Anshul, 1980- |
| Degree committee member | Sherlock, Gavin |
| Degree committee member | Urban, Alexander E |
| Associated with | Stanford University, Department of Genetics |
Subjects
| Genre | Theses |
|---|---|
| Genre | Text |
Bibliographic information
| Statement of responsibility | Brayon Joseph Fremin. |
|---|---|
| Note | Submitted to the Department of Genetics. |
| Thesis | Thesis Ph.D. Stanford University 2021. |
| Location | https://purl.stanford.edu/gy850wq6378 |
Access conditions
- Copyright
- © 2021 by Brayon Joseph Fremin
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
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