Atlas level scRNAseq analysis reveals the functional landscape of cell types

Harris, Benjamin D (October 2021) Atlas level scRNAseq analysis reveals the functional landscape of cell types. PhD thesis, Cold Spring Harbor Laboratory.

	PDF Harris-SBS_Final Thesis.pdf Download (40MB)
	PDF Harris_SBS_ThesisSubmissionForm.pdf Restricted to Repository staff only Download (118kB)

Abstract

Characterizing the diversity and function of the many cells that make up living organisms is an essential aspect of cell biology. This thesis uses meta-analysis of large-scale single cell RNA sequencing (scRNAseq) data to both explore the diversity of cell types and the functional landscape that defines them. My methodology is based on meta-analysis because it serves to find robust signatures across datasets with significant technical variation, thereby determining what signatures and properties are likely to generalize to new data. After the introduction, I present two vignettes that explore the functional landscape of hematopoiesis Chapter 2 and neurons Chapter 3 using this philosophy. In Chapter 4 I summarize my results and provide a perspective on how the field can build on this work. Finally, Appendix A and B are two manuscripts I contributed to that are relevant, but not central to this work.

Item Type:	Thesis (PhD)
Subjects:	bioinformatics > genomics and proteomics organs, tissues, organelles, cell types and functions > cell types and functions > cell types > hematopoietic cell organs, tissues, organelles, cell types and functions > cell types and functions > cell types > hematopoietic cell organs, tissues, organelles, cell types and functions > cell types and functions > cell types > hematopoietic cell organs, tissues, organelles, cell types and functions > cell types and functions > cell types > neurons organs, tissues, organelles, cell types and functions > cell types and functions > cell types > neurons organs, tissues, organelles, cell types and functions > cell types and functions > cell types > neurons Investigative techniques and equipment > scRNAseq bioinformatics > genomics and proteomics > genetics & nucleic acid processing > transcriptomes
CSHL Authors:	Harris, Benjamin
Communities:	CSHL labs > Gillis Lab School of Biological Sciences > Theses
Depositing User:	Sasha Luks-Morgan
Date:	28 October 2021
Date Deposited:	05 Nov 2021 17:56
Last Modified:	29 Feb 2024 19:13
URI:	https://repository.cshl.edu/id/eprint/40411

Actions (login required)

Administrator's edit/view item