Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cutaneous lupus features specialized stromal niches and altered retroelement expression

ABSTRACT: Cutaneous lupus features specialized stromal niches and altered retroelement expression

PROVIDER: PRJNA1248962 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR33099984_1.fastq.gz	Fastqsanger.gz
	SRR33099984_2.fastq.gz	Fastqsanger.gz
	SRR33099985_1.fastq.gz	Fastqsanger.gz
	SRR33099985_2.fastq.gz	Fastqsanger.gz
	SRR33099986_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 20

Similar Datasets

Cutaneous lupus features specialized stromal niches and altered retroelement expression

Project description:Single-cell RNA and spatial sequencing of lesional and non-lesional cutaneous lupus skin compared to healthy controls. The study includes 12 single-cell samples (cutaneous lupus patients with non-lesional (5) and lesional (4) skin biopsies with healthy controls (3)) and 4 spatial transcriptomics samples (cutaneous lupus patient pre/post-Anifrolumab treatment, 1 additional CLE patient, and 1 healthy control).

2025-04-14 | GSE294296 | GEO

Genome-wide analysis of gene expression of cutaneous lupus and cutaneous psoriasis lesions

Project description:Human skin samples from cutaneous lupus subtypes, psoriasis, and normal patients were used to corroborate findings of Fas Ligand elevation in a murine model of cutaneous lupus

2018-07-15 | GSE109248 | GEO

Spatial transcriptomics of Cutaneous and Systemic Lupus Erythematosus skin

Project description:We performed spatial transcriptomics on a case series of different clinical subtypes of cutaneous lupus erythematosus including acute cutaneous lupus erythematosus (malar rash, systemic lupus erythematosus). Our goals were to (1) determine which differentially expressed genes (DEGs) could be attributed to specific cell populations in specific locations within the tissue, (2) determine if spatial transcriptomics could better distinguish between CLE clinical subtypes than bulk RNA approaches and (3) examine potential cell-cell communication pathways within the skin lesions.

2021-10-01 | GSE182825 | GEO

Modular gene analysis reveal distinct molecular signatures for cutaneous lupus patient subsets

Project description:We utilized RNA-seq to investigate the molecular heterogenity of cutaneous lupus patients compared to controls.

2021-03-02 | GSE167923 | GEO

Gene expression in cutaneous lupus erythematosus

Project description:Lesional skin biopsies were taken from patients with active, untreated lupus skin disease (chronic discoid lupus erythematosus, CDLE, n=6; subacute cutaneous lupus erythematosus, SCLE, n=5). Healthy control specimens (HC) were obtained from healthy skin of 5 patients undergoing plastic surgery. In every case, two 4mm punch biopsies were taken. One was flash-frozen in liquid nitrogen and afterwards processed for mRNA isolation. The second biopsy was fixed in 5% formalin solution overnight, and was proceeded for histological investigation.The one-color Agilent 60-mer oligo microarray (Agilent, Santa Clara, CA) was used for gene expression analyses. Statistical analyses were performed using the Agilent Feature Extraction Softwareâ¢ and the Rosetta Resolverâ¢ gene expression data analysis system. The presented gene list (Table S1) includes normalized sample/ control log10-ratios (expression > 2-fold enhanced, p<0.01).

2017-02-24 | E-MTAB-5542 | biostudies-arrayexpress

Genome-wide analysis of gene expression of cutaneous lupus skin samples and lupus nephritis kidney samples

Project description:Microarray gene expression analyses were performed on human skin samples from cutaneous lupus subtypes (SCLE and CCLE) and normal patients along with human kidney samples from lupus nephritis and normal patients

2021-04-22 | GSE112943 | GEO

Characterization of Human Bone Marrow Niches with Metabolome and Transcriptome Profiling

Project description:The hematopoietic niches in bone marrow (BM) are specialized compartments working in harmony to regulate all the steps of the hematopoiesis cascade. Little is known about how BM niches in healthy humans. Therefore, we investigated the presence of different niches in healthy human BM using comparative omic technologies (Metabolomic and transcriptomic). We sequenced and comparative analyzed mRNA samples of human bone marrow mesenchymal stem cells (MSCs) to generate the gene expression profiles of these cells which obtained from two anatomically different BM regions (R1 and R2).

2021-03-01 | GSE145008 | GEO

Bone marrow niches orchestrate stem cell hierarchy and immune tolerance

Project description:Stem cells reside in specialized microenvironments, termed niches, at several different locations within tissues1-3. The differential functions of heterogeneous stem cells and niches are important given increasing clinical applications of stem cell transplantation and immunotherapy. It remains unknown whether hierarchical structures amongst stem cells at distinct niches exist, and further control aspects of immune tolerance. Here, we propose novel hierarchical arrangements within hematopoietic stem cells (HSCs) and bone marrow (BM) niches, that dictate both regenerative potential and immune privilege. High level nitric oxide-generating (NOHi) HSCs are refractory to immune attack and exhibit "delayed" albeit robust long-term reconstitution. Such highly immune privileged, primitive NOHi HSCs colocalize with distinctive capillaries, characterized by primary ciliated endothelium and high levels of the immune checkpoint molecule CD200. These capillaries regulate the regenerative functions of NOHi HSCs through ciliary protein IFT20/CD200/eNOS/autophagy signals, further mediating immune protection. Notably, previously described niche constituents, sinusoidal cells and Type H vessels2-10, co-localize with less immune privileged and less potent NOLow HSCs. Therefore, we have identified highly immune privileged, "late-rising" primitive HSCs and characterized their immunoprotective niches constituted of specialized vascular domains. Our studies suggest the niche may orchestrate hierarchy in stem cells and immune tolerance, delineating future immunotherapeutic targets.

2024-10-31 | GSE277668 | GEO

The female-biased factor VGLL3 drives cutaneous and systemic autoimmunity: RNA-seq analysis of the K5-Vgll3 transgenic mouse model of cutaneous and systemic lupus

Project description:RNA-seq analysis of nonlesional skin, whole blood, and cultured primary keratinocytes of wild-type and autoimmunity-prone K5-Vgll3 mice, which overexpress the female-biased transcription cofactor VGLL3 in the epidermis and develop a progressive lupus-like rash and systemic autoimmune disease with features of systemic lupus erythematosus. These skin and blood data demonstrate that skin-directed overexpression of VGLL3 results in gene expression changes strikingly similar to those seen in skin and blood of patients with cutaneous and systemic lupus, respectively.

2019-03-19 | GSE128453 | GEO

Genome-wide analysis of gene expression of cutaneous lupus and cutaneous psoriasis lesions

Project description:Genome-wide analysis of gene expression of cutaneous lupus and cutaneous psoriasis lesions

| PRJNA430239 | ENA