Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [naïve]

ABSTRACT: The dysregulated differentiation of T lymphocytes play an important role in systemic lupus erythematosus (SLE). However, the underlying mechanism remains unclear. Our findings reveal many overexpressed HERVs in CD4+ T cells from SLE patients. To investigate the role of dsRNA/RIG-I pathway in CD4+ T cell differentiation, RNA-seq was performed in CD3 and CD28 antibodies activated naive CD4+ T cells transfected with poly(I:C). The expression profiles of genes related to the effector T cell differentiation reveal that dsRNAs induced the activation of the RIG-I signaling pathway plays important roles in aberrant differentiation of T cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE288272 | GEO | 2025/11/18

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	GSE288272_gene_count_naive_mock_vs_poly.xls.gz	Xls

Items per page:

1 - 2 of 2

Similar Datasets

Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [SLE]

Project description:The dysregulated differentiation of T lymphocytes play an important role in systemic lupus erythematosus (SLE). However, the underlying mechanism remains unclear. Here, we screened and identified many overexpressed HERVs in CD4+ T cells from SLE patients by RNA-seq and found that some HERVs formed dsRNAs to induce the activation of the RIG-I signaling pathway. And our findings reveal the roles and mechanism of HERVs and RIG-I in regulating the aberrant differentiation of T cells in SLE patients.

2025-11-18 | GSE297006 | GEO

Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [whole transcriptomics]

Project description:The dysregulated differentiation of T lymphocytes play an important role in systemic lupus erythematosus (SLE). However, the underlying mechanism remains unclear. Here, we screened and identified many overexpressed HERVs in CD4+ T cells from SLE patients by whole transcriptome resequencing and found that some HERVs formed dsRNAs to induce the activation of the RIG-I signaling pathway. And our findings reveal the roles and mechanism of HERVs and RIG-I in regulating the aberrant differentiation of T cells in SLE patients.

2025-11-18 | GSE288271 | GEO

Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [mouse_CD4]

Project description:The dysregulated differentiation of T lymphocytes play an important role in systemic lupus erythematosus (SLE). However, the underlying mechanism remains unclear. Here, we screened for differentially expressed genes in CD4+T cells derived from WT and DDX58 KO mice by RNA-seq. And our findings reveal the roles and mechanism of RIG-I in regulating the aberrant differentiation of T cells in SLE patients.

2025-11-18 | GSE296556 | GEO

Ultraviolet light induces HERV expression to activate RIG-I signaling pathway in keratinocytes

Project description:Skin inflammation and photosensitivity are common in lupus erythematosus (LE) patients, and Ultraviolet (UV) light is a known trigger of skin and possibly systemic inflammation in systemic lupus erythematosus (SLE) and discoid lupus erythematosus (DLE) patients. Type I interferons (IFN) are upregulated in LE skin after UV exposure, however, the mechanisms to explain UVB-induced inflammation remain unclear. Here we performed RNA-seq to HaCat cells with UVB irradiation to characterize gene expression and resolve differential responses of keratinocytes, in order to understand how the keratinocyte response contributes to the disease. Our data showed that HERVs and RIG-I pathway were activated in keratinocytes after UVB exposure and indicate that RIG-I pathway and HERVs are involved in proinflammatory by activating the I-IFN pathway, which provide a novel insight into how UVB promotes and aggravate skin lesion of LE patients.

2022-05-01 | GSE198792 | GEO

TERT activates endogenous retroviruses contributing to immunosuppressive tumour microenvironment III

Project description:Telomerase plays a pivotal role in tumorigenesis by both telomere-dependent and telomere-independent activities, although the underlying mechanisms are not completely understood. Using single-sample gene set enrichment analysis (ssGSEA) across 9,264 tumour samples, we observed that expression of telomerase reverse transcriptase (TERT) is closely associated with immune-suppressive signatures. We demonstrated that TERT can activate a subclass of endogenous retroviruses (ERVs) to form double-stranded RNAs (dsRNAs), which were sensed by the RIG-1/MDA5-MAVS signalling pathway and triggered interferon signalling in cancer cells. Furthermore, we showed that TERT-induced ERVs/interferon signalling stimulated the expression of chemokines, including CXCL10, which induced suppressed T cell infiltration with increased percentage of CD4+ and FOXP3+ cells. These data reveal an unanticipated role for telomerase as a transcriptional activator of ERVs and provide strong evidence that TERT-mediated ERVs/interferon signalling contributes to immune suppression in tumours.

2022-02-22 | GSE169714 | GEO

TERT activates endogenous retroviruses contributing to immunosuppressive tumour microenvironment II

2022-02-22 | GSE169713 | GEO

TERT activates endogenous retroviruses contributing to immunosuppressive tumour microenvironment I

2022-02-22 | GSE169711 | GEO

TDP-43 prevents endogenous RNAs from triggering a lethal RIG-I-dependent interferon response

Project description:RIG-I-like receptors (RLRs) are involved in the discrimination of self vs non-self via the recognition of dsRNA. Emerging evidence suggests that immunostimulatory dsRNAs are ubiquitously expressed yet they are disrupted or sequestered by cellular RNA binding proteins (RBPs). TDP-43 is an RBP associated with multiple neurological disorders and is essential for cell viability. Here, we demonstrate that TDP-43 regulates the accumulation of immunostimulatory dsRNA. The immunostimulatory RNA was identified as RNA Polymerase III transcripts, including 7SL and Alu retrotransposons, and we demonstrate that the RNA binding activity of TDP-43 is required to prevent immune stimulation. The dsRNAs activate a RIG-I-dependent interferon response which promotes necroptosis. Genetic inactivation of the RLR-pathway rescues the interferon-mediated cell-death associated with loss of TDP-43. Collectively, our study describes a role for TDP-43 in preventing the accumulation of endogenous immunostimulatory dsRNAs and uncovers an intricate relationship between the control of cellular gene expression and IFN-mediated cell-death.

2021-05-05 | GSE162644 | GEO

DNA Methylation Analysis of Systemic Lupus Erythematosus

Project description:This study performed Illumina Methylation450 analysis of CD4+ T-cells, CD19+ B-cells and CD14+ Monocytes from lupus patients and controls. A validation cohort was further analyzed with the same platform using CD4+ T-cells, CD45RO-CD45RA+ naive T-cells, CD45RO+CD45RA- memory T-cells, and CD25+CD127- regulatory T-cells. SLE v Control comparisions were made within each cell type. The SLE patient samples are labeled SLEnnnn and the controls Xnnnn. The cell type CD4, CD14, CD19, Tmem, Treg, Tnaive is appended to each sample ID.

2014-07-10 | E-GEOD-59250 | biostudies-arrayexpress

Silencing of double stranded RNA sensing is required for early embryonic development

Project description:The type I interferon (IFN) response is inactive during early mammalian development and becomes functional only after gastrulation. As a result, the totipotent and pluripotent embryonic stages remain susceptible to pathogens, including viruses. Here, we demonstrate that pluripotent mouse embryonic stem cells (mESCs) suppress the RIG-I-like receptor sensing pathway by silencing the expression of the dsRNA sensor MDA5. This silencing is necessary to avoid the recognition of dsRNAs of endogenous origin, which accumulate in mESCs. Reintroducing MDA5 results in recognition of these endogenous dsRNAs and triggers the activation of the IFN response through IRF3. The production of IFN alters the differentiation ability of mESCs, and affects the pluripotency gene expression program, as shown by epigenetic, transcriptomic and proteomic analyses. These findings are conserved in zebrafish, where MDA5 is also expressed at later developmental stages. Similarly, zebrafish lack earlystage IFN activation, and dsRNA-mediated signalling results in developmental defects. Altogether, we conclude that silencing the RIG-I-like receptor pathway during early development is widely conserved and is essential to prevent aberrant immune recognition of endogenous dsRNAs, safeguarding normal development.

2025-09-26 | PXD059977 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data