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Single-cell RNA-sequencing of human innate lymphoid cells (ILCs) and natural killer (NK) cells in the vascular and tissue compartment of the lung in MISTRG humanized mice

ABSTRACT: Single-cell RNA-sequencing of human innate lymphoid cells (ILCs) and natural killer (NK) cells in the vascular and tissue compartment of the lung in MISTRG humanized mice

PROVIDER: PRJNA900195 | ENA |

REPOSITORIES: ENA

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Single-cell RNA-sequencing of human innate lymphoid cells (ILCs) and natural killer (NK) cells in the vascular and tissue compartment of the lung in MISTRG humanized mice

Project description:ILCs and NK cells are innate immune cells that act as sentinels of healthy tissue function. However, it is largely unknown how ILCs and NK cells are recruited into distinct tissue niches and how they adapt to specific anatomical niches within tissues. Using an in-vivo model for human immune cells (MISTRG humanized mice), we determined the gene signatures of human ILCs and NK cells in the vascular and tissue niche of the lung by single-cell RNA-sequencing.

2023-06-27 | GSE217706 | GEO

Single-cell RNA-sequencing of human vascular and tissue innate lymphoid cells (ILCs) in the spleen of MISTRG humanized mice

Project description:The migratory properties of human ILCs are poorly understood. In this study, we mapped at single-cell resolution the heterogeneity and spatial compartmentalization of human ILCs in the spleen, using an in-vivo model (MISTRG humanized mice) for human ILCs.

2022-04-04 | GSE199965 | GEO

Gene expression profiling of small intestine (SI) NKp46+RORgt+ and NKp46+RORgt- Innate Lymphoid Cells (ILCs)

Project description:The aim of this study was to analyze the global transcriptional profiles of small intestine (SI) Innate Lymphoid Cells (ILCs) expressing the NK cell marker NKp46. Based on differential expression of the RORgt transcription factor SI NKp46+ ILCs can be divided in NKp46+RORgt- and NKp46+RORgt+ cells. While NKp46+RORgt- cells produce IFN-g, like conventional Natural Killer (NK) cells, NKp46+RORgt+ cells secrete IL-22, like Lymphoid Tissue inducer (LTi) cells. We compared the global transcriptional profiles of both NKp46+RORgt- and NKp46+RORgt+ cells to conventional splenic NK cells and to SI NKp46-RORgt+ cells, which contain adult LTi cells. By following this approach, we showed that SI NKp46+RORγt- ILCs correspond to SI NK cells. We also identified a transcriptional program conserved in adult SI NKp46+RORγt+, NKp46-RORγt+ ILCs and fetal LTi. The various ILC cell populations analyzed in this study were isolated from C57BL/6 RORc(gt)+/GFP reporter mice. SI NKp46+RORγt- (NKp46+GFP-) cells, SI NKp46+RORγt+ cells (NKp46+GFPlow and NKp46+GFPhigh cells) and NKp46-RORγt+ ILCs, including adult LTi cells , were sorted by flow cytometry from CD3- lamina propria cells of small intestine (SI) of RORc(γt)+/GFP reporter mice . Splenic NKp46+RORγt- (NKp46+GFP-) cells were also sorted as the reference for conventional NK cells. Two replicates of each populations were produced and analyzed.

2011-06-20 | E-GEOD-29777 | biostudies-arrayexpress

Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs)

Project description:Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs) from three independent tonsil donors. Sequencing libraries were prepared from FACS sorted individual ILCs with the Smart-Seq2 protocol (Picelli et al. Nature Methods 2013)

2016-01-27 | E-GEOD-70580 | biostudies-arrayexpress

Gene expression profiling of small intestine (SI) NKp46+RORgt+ and NKp46+RORgt- Innate Lymphoid Cells (ILCs)

2011-06-20 | GSE29777 | GEO

Gene expression profile at single cell level of Innate Lymphoid Cells (ILCs), Natural Killer (NK) cells , and T cells from human tonsils

Project description:We used single cell RNA sequencing to investigate the diversity of ILCs, NKs, and T cells in the human tonsil

2023-11-06 | GSE229104 | GEO

RNA-binding protein RBM3 negatively regulates innate lymphoid cells (ILCs) and lung inflammation

Project description:Innate lymphoid cells (ILCs) promote lung inflammation in diseases such as asthma through cytokine production. RNA-binding proteins (RBPs) are critical post-transcriptional regulators of cellular function though the role of RBPs in innate lymphoid cells is unknown. Here, we demonstrate that RNA-binding motif 3 protein (RBM3) is one of the most highly expressed RBPs in Thy1.2+ lung ILCs after fungal allergen challenge and is further induced by epithelial cytokines TSLP and IL-33 in both human and mouse ILCs. Single (rbm3-/-) and double (rbm3-/-rag2-/-) knockout mice exposed via the airway to the asthma-associated fungal allergen Alternaria alternata displayed increases in eosinophilic lung inflammation and ILC activation compared to control mice. In addition to increased Th2 cytokine production, rbm3-/- ILCs produced elevated IL-17A. The negative regulation by RBM3 in ILC responses was direct as purified rbm3-/- ILCs were hyperinflammatory in vitro and in vivo after stimulation with IL-33. Transcriptomic analysis by RNA-sequencing of rbm3-/- lung ILCs showed increased type 2 and 17 cytokines as well as global expression differences in critical cytokines, receptors, transcription factors, and survival transcripts compared with WT ILCs. Importantly, these transcript changes were independent of the numbers of AU-rich elements (AREs) which RBM3 is known to bind. Thus, regulation of ILC responses by RNA-binding proteins offers novel mechanistic insight into lung ILC biology and ILC-driven inflammatory diseases.

2021-01-01 | GSE155330 | GEO

Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs)

Project description:Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs) from three independent tonsil donors.

2016-01-27 | GSE70580 | GEO

Microarray of skin innate lymphoid cells (ILCs) of CCR10+/EGFP and Rag1-/-CCR10+/EGFP mice

Project description:We previously found that while CCR10+ ILCs are dominant in the healthy skin, they differentiate into CCR10- ILCs in the skin of mice with various dysregulated or inflammatory conditions, such as T/B cell-deficient Rag1-/- mice. These suggest that CCR10- ILCs are activated effector cells in response to altered skin environments. To gain clues about the functional mechanism and regulation of the ILC activation in the skin, we compared gene expression profiles of CCR10+ skin ILCs of wild-type (WT) mice versus CCR10- or CCR10low skin ILCs of WT and Rag1-/- mice using microarray analyses. Skin innate lymphoid cells were isolated by BD FACSAria sorting system. The microarry was perfomanced by Immunological Genome Project using Affymetrix arrays and used for analysis of gene expresssion of CCR10+ ILCs and CCR10- ILCs in different mice species as indicated.

2022-05-23 | GSE199703 | GEO

Gene expression profile after freeze-thawing at single cell level of Innate Lymphoid Cells (ILCs), Natural Killer (NK) cells , and T cells from human tonsils

Project description:We used single cell RNA sequencing to investigate the diversity of ILCs, NKs, and T cells in the human tonsil and the impact of freeze-thawing on their expression profile

2024-02-01 | GSE232673 | GEO

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