Revolutionizing immunology with single-cell RNA sequencing
Cellular and Molecular ImmunologyPublished 22 February 2019Open access
Haide Chen, Fang Ye, Guoji Guo
Citations235
SJR quartileQ1
SJR score5.92
SNIP3.29
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TL;DR
This review introduces the existing sc RNA-seq technologies and presents their strengths and weaknesses, and discusses potential applications and future innovations of scRNA-seq in immunology.
Abstract
The immune system is composed of a complex hierarchy of cell types that protect the organism against disease and maintain homeostasis. Identifying heterogeneity of immune cells is the key to understanding the immune system. Advanced single-cell RNA sequencing (scRNA-seq) technologies are revolutionizing our ability to study immunology. By measuring transcriptomes at the single-cell level, scRNA-seq enables identification of cellular heterogeneity in far greater detail than conventional methods. In this review, we introduce the existing scRNA-seq technologies and present their strengths and weaknesses. We also discuss potential applications and future innovations of scRNA-seq in immunology.
Keywords
Immunology and MicrobiologyBiochemistry, Genetics and Molecular Biology
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Genome biologySingle-cell profiling of human megakaryocyte-erythroid progenitors identifies distinct megakaryocyte and erythroid differentiation pathways
164 Citations2016Bethan Psaila, Nikolaos Barkas +11 more
A novel immunophenotyping strategy is presented that enables the prospective identification of specific intermediate progenitor populations in erythro-megakaryopoiesis, allowing for in-depth study of disorders including inherited cytopenias, myeloproliferative disorders, and erythromegakaryocytic leukemias.
Frontiers in ImmunologySingle Cell T Cell Receptor Sequencing: Techniques and Future Challenges
158 Citations2018Marco De Simone, Grazisa Rossetti +1 more
Novel approaches that through the integration of TCR tracking and mRNA single cell sequencing offer a valuable tool to associate antigen specificity to transcriptional dynamics and to understand the molecular mechanisms of T cell plasticity are discussed.
Genome biologyMapping human pluripotent stem cell differentiation pathways using high throughput single-cell RNA-sequencing
123 Citations2018Xiaoping Han, Haide Chen +9 more
High throughput single-cell RNA-sequencing is used, based on optimized microfluidic circuits, to profile early differentiation lineages in the human embryoid body system and reveals the cellular-state landscape of hPSC early differentiation, offering new insights that can be harnessed for optimization of differentiation protocols.
Nature CommunicationsSingle-cell transcriptomics reveal the dynamic of haematopoietic stem cell production in the aorta
123 Citations2018Chloé S. Baron, Lennart Kester +8 more
This study performs single-cell RNA-sequencing of cells isolated from embryonic mouse aortas to identify genes and transcription factor networks activated during the endothelial-to-haematopoietic switch and IAHC cell maturation toward an HSC fate.
BloodGenome-wide minor histocompatibility matching as related to the risk of graft-versus-host disease
114 Citations2016Paul J. Martin, David Levine +7 more
The tested hypothesis that higher degrees of genome-wide recipient GVH mismatching correlate with higher risks of GVHD after allogeneic HCT is predominantly an effect of HLA-mismatching is suggested.
Developmental BiologyCross-platform single cell analysis of kidney development shows stromal cells express Gdnf
98 Citations2017Bliss Magella, Mike Adam +6 more
The single cell gene expression profiles generated in this study confirmed and extended previous work showing the presence of multilineage priming during kidney development, and Nephron progenitors showed stochastic expression of genes associated with multiple potential differentiation lineages.
ImmunityCellular Barcoding Links B-1a B Cell Potential to a Fetal Hematopoietic Stem Cell State at the Single-Cell Level
95 Citations2016Trine Kristiansen, Elin Jaensson Gyllenbäck +7 more
It is demonstrated that the developmental decline in regenerative potential represents a reversible HSC state and anchor the attenuation of B-1a cell output to fetal HSC behavior.
LeukemiaSingle-cell sequencing reveals the origin and the order of mutation acquisition in T-cell acute lymphoblastic leukemia
85 Citations2018Jolien De Bie, Sofie Demeyer +11 more
It is demonstrated that targeted single-cell sequencing can elucidate the order of mutation acquisition in T-ALL and that T-all development can start in a multipotent progenitor cell.
ImmunologySingle‐cell technologies to study the immune system
63 Citations2015Valentina Proserpio, Bidesh Mahata
The recent advancement and application of single‐cell technologies, their limitations and future applications to study the immune system are discussed.
CellA Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells
60 Citations2017Meromit Singer, Chao Wang +17 more
This research highlights the need to understand more fully the role of language in the creative process and the role that language plays in the decision-making of individuals.
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