Gene regulation and the physical genome
Abstract/Contents
- Abstract
- Interpreting genetic or genomic data requires an understanding of DNA as a tangible, dynamic object with particular physical properties. In most eukaryotes, DNA is packaged in the nucleus as chromatin, with proteins called nucleosomes that determine the accessibility of the genome to biochemical activity. In this work, I chart chromatin accessibility and gene expression in a three-dimensional induced stem cell-derived organoid model of human cortical development, nominating specific molecular factors that may drive differentiation and maturation of glial, excitatory neuronal, and inhibitory cell lineages. I identify putative enhancers that may regulate corticogenesis and developmental states that harbor increased vulnerability to genetic perturbations associated with neurodevelopmental disease. Separately, I studied the three-dimensional organization of a unique eukaryotic organism that does not package DNA with nucleosomes, the dinoflagellate Symbiodinium minutum. I found that the domain-scale architecture of its chromosomes was completely dependent on ongoing active transcription, highlighting a fundamental connection between gene expression and genome organization.
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 | 2020; ©2020 |
| Publication date | 2020; 2020 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Author | Trevino, Alexandro E |
|---|---|
| Degree supervisor | Greenleaf, William James |
| Thesis advisor | Greenleaf, William James |
| Thesis advisor | Bintu, Lacramioara |
| Thesis advisor | Bryant, Zev David |
| Thesis advisor | Chang, Howard Y. (Howard Yuan-Hao), 1972- |
| Degree committee member | Bintu, Lacramioara |
| Degree committee member | Bryant, Zev David |
| Degree committee member | Chang, Howard Y. (Howard Yuan-Hao), 1972- |
| Associated with | Stanford University, Department of Bioengineering |
Subjects
| Genre | Theses |
|---|---|
| Genre | Text |
Bibliographic information
| Statement of responsibility | Alexandro Eugene Trevino. |
|---|---|
| Note | Submitted to the Department of Bioengineering. |
| Thesis | Thesis Ph.D. Stanford University 2020. |
| Location | electronic resource |
Access conditions
- Copyright
- © 2020 by Alexandro E Trevino
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
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