Characterization of Developmental Trajectories of Dendritic Cell Hematopoiesis Through Single-Cell RNA Sequencing Methods

Regine J Dress; Florent Ginhoux

doi:10.1007/978-1-0716-2938-3_23

Characterization of Developmental Trajectories of Dendritic Cell Hematopoiesis Through Single-Cell RNA Sequencing Methods

Methods Mol Biol. 2023:2618:375-385. doi: 10.1007/978-1-0716-2938-3_23.

Authors

Regine J Dress¹, Florent Ginhoux^{2

3

4

5

6}

Affiliations

¹ Institute of Systems Immunology, Hamburg Center for Translational Immunology (HCTI), University Medical Center Hamburg-Eppendorf, Hamburg, Germany. [email protected].
² Singapore Immunology Network (SIgN), Agency for Science, Technology and Research, Singapore, Singapore. [email protected].
³ Shanghai Institute of Immunology, Department of Immunology and Microbiology, Shanghai Jiao Tong University School of Medicine, Shanghai, China. [email protected].
⁴ Translational Immunology Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore, Singapore. [email protected].
⁵ Gustave Roussy Cancer Campus, Villejuif, France. [email protected].
⁶ Institut National de la Santé et de la Recherche Médicale (INSERM) U1015, Equipe Labellisée - Ligue Nationale contre le Cancer, Villejuif, France. [email protected].

PMID: 36905527
DOI: 10.1007/978-1-0716-2938-3_23

Abstract

Single-cell technologies have become valuable tools to trace dendritic cell differentiation trajectories. Here, we illustrate the workflow used for processing of mouse bone marrow for single-cell RNA sequencing and trajectory analyses, as done in Dress et al. (Nat Immunol 20:852-864, 2019). This short methodology is presented as a starting point for researchers just beginning to dive into the complex field of dendritic cell ontogeny and cellular development trajectory analyses.

Keywords: DC; Dendritic cells; Hematopoiesis; Progenitor; RNA-seq; Single cell; Slingshot; Trajectory; UMAP; cMap.

MeSH terms

Animals
Cell Differentiation
Dendritic Cells*
Hematopoiesis*
Mice
Sequence Analysis, RNA / methods
Single-Cell Analysis / methods