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Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level

ABSTRACT: Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level

PROVIDER: PRJNA865561 | ENA |

REPOSITORIES: ENA

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Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level [scRNA-seq]

Project description:Systemic sclerosis (SSc) is an uncommon disease characterized by elevated autoantibody production, vasculopathy and fibrosis of the skin and internal organs. pDCs are the core cell type to produce type I IFN and contributes to the ISG signature and SSc progression. Using single-cell RNA sequencing, we profiled 32529 pDCs enriched and T cell depleted peripheral blood mononuclear cells (PBMCs) from 4 patients with SSc and 4 matched controls. Increased CD16+ monocytes and decreased cDCs are the major changes in the cell composition between SSc and heathy controls. Increased expression of interferon-stimulated genes (ISGs) and apoptotic genes distinguished cells from patients with SSc from healthy control cells. The high ISG expression signature (ISGhi) derived from a small number of transcriptionally defined subpopulations within major cell types, including monocytes, natural killer cells, conventional and plasmacytoid dendritic cells, B cells. Profiling of 10976 pDCs revealed a newly identified PTGDS+ population and a clear increased ISG hi clusters in SSc pDCs. Profiling of 13317 Monocytes revealed increased CD16+ Monocytes and a clear increased ISG hi clusters in SSc monocytes. We then compared the TLRs-IFN response of the pDCs from SSc and Healthy control. RNASeq revealed SSc pDCs enables an unexpected TLR8-IFN signaling to increase the IFN signature. This study lays the groundwork for resolving the origin of the SSc transcriptional signatures and the disease heterogeneity towards precision medicine applications.

2024-08-10 | GSE210395 | GEO

Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level [Bulk RNA-seq]

2024-08-10 | GSE210394 | GEO

Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level [scRNA-seq]

Project description:Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level [scRNA-seq]

| PRJNA865564 | ENA

Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level [Bulk RNA-seq]

Project description:Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level [Bulk RNA-seq]

| PRJNA865563 | ENA

CEACAM 1, 3, 5 and 6 -positive classical monocytes correlate with interstitial lung disease in early systemic sclerosis

Project description:To clarify the characteristics of CEACAM-positive monocytes in systemic sclerosis (SSc), we performed gene expression microarrays between CEACAM-positive and CEACAM-negative classical monocytes from diffused cutaneous systemic sclerosis(dcSSc) patients. We further analyzed expression levels of each subtype of CEACAM on monocytes from dcSSc by flow cytometry and performed gene expression microarrays between CEACAM1+CEACAM6- and CEACAM1-CEACAM6+ monocytes.

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CEACAM 1, 3, 5 and 6 -positive classical monocytes correlate with interstitial lung disease in early systemic sclerosis

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Classical Monocytes from African American Patients with Systemic Sclerosis

Project description:Classical Monocytes from African American Patients with Systemic Sclerosis

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Mapping the heterogeneity of pDCs and Monocytes of systemic sclerosis at single cell level

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-08-10 | GSE210396 | GEO

Transcriptomic Analysis of Classical Monocytes from African American Patients with Systemic Sclerosis

Project description:Systemic sclerosis is a multisystem autoimmune disorder that has an unclear etiology and disproportionately affects African Americans (AA). Additionally, monocytes show heightened activation in SSc, and in AA relative to European ancestry (EA) individuals. Monocytes are thus a good target tissue for elucidating disease mechanisms. In this study, we sought to identify differentially expressed genes in classical monocytes from AA SSc patients relative to unaffected AA controls. We performed RNAseq to profile the transcriptome on FACS-isolated classical monocytes (CD14++CD16-) from 16 female AA SSc cases and 18 female AA controls. We observed modest gene expression differences between cases and controls. The genes harboring the top differentially methylated cytosines are enriched for metabolic processes. The relatively modest differences in gene expression observed between patients and controls is consistent with prior evidence of stronger inflammatory signatures in AA.

2022-02-07 | GSE196070 | GEO

DNA Methylation Analysis in Classical Monocytes from African American Patients with Systemic Sclerosis

Project description:Systemic sclerosis is a multisystem autoimmune disorder that has an unclear etiology and disproportionately affects African Americans (AA). Additionally, monocytes show heightened activation in SSc, and in AA relative to European ancestry (EA) individuals. Monocytes are thus a good target tissue for elucidating disease mechanisms. In this study, we sought to investigate differentially methylated loci in classical monocytes from AA SSc patients and unaffected AA controls. We used Illumina’s MethylationEPIC BeadChip to profile DNA methylation patterns on FACS-isolated classical monocytes (CD14++CD16-) from 12 female AA SSc cases and 12 female AA controls. We observed modest DNA methylation differences between cases and controls. The genes harboring the top differentially methylated cytosines are enriched for immune pathways and metabolic processes. The relatively modest differences in DNA methylation observed between patients and controls is consistent with prior evidence of stronger inflammatory signatures in AA.

2022-02-07 | GSE196007 | GEO

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