A Meta-Analytic Single-Cell Atlas of Mouse Bone Marrow Hematopoietic Development

Harris, Benjamin, Lee, John, Gillis, Jesse (August 2021) A Meta-Analytic Single-Cell Atlas of Mouse Bone Marrow Hematopoietic Development. BioRxiv. (Unpublished)

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URL: https://www.biorxiv.org/content/10.1101/2021.08.12...
DOI: 10.1101/2021.08.12.456098

Abstract

The clinical importance of the hematopoietic system makes it one of the most heavily studied lineages in all of biology. A clear understanding of the cell types and functional programs during hematopoietic development is central to research in aging, cancer, and infectious diseases. Known cell types are traditionally identified by the expression of proteins on the surface of the cells. Stem and progenitor cells defined based on these markers are assigned functions based on their lineage potential. The rapid growth of single cell RNA sequencing technologies (scRNAseq) provides a new modality for evaluating the cellular and functional landscape of hematopoietic stem and progenitor cells. The popularity of this technology among hematopoiesis researchers enables us to conduct a robust meta-analysis of mouse bone marrow scRNAseq data. Using over 300,000 cells across 12 datasets, we evaluate the classification and function of cell types based on discrete clustering, in silico FACS sorting, and a continuous trajectory. We identify replicable signatures that define cell types based on genes and known cellular functions. Additionally, we evaluate the conservation of signatures associated with erythroid and monocyte lineage development across species using co-expression networks. The co-expression networks predict the effectiveness of the signature at identifying erythroid and monocyte cells in zebrafish and human scRNAseq data. Together, this analysis provides a robust reference, particularly marker genes and functional annotations, for future experiments in hematopoietic development.

Item Type: Paper
Subjects: organs, tissues, organelles, cell types and functions > organs types and functions > bone marrow
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
organism description > animal > mammal > rodent > mouse
CSHL Authors:
Communities: CSHL labs > Gillis Lab
SWORD Depositor: CSHL Elements
Depositing User: CSHL Elements
Date: 12 August 2021
Date Deposited: 23 Sep 2021 15:39
Last Modified: 23 Sep 2021 15:39
URI: https://repository.cshl.edu/id/eprint/40363

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