GEO DataSets

(Submitter supplied) Background/Purpose: Systemic lupus erythematosus (SLE) is a complex multi-system autoimmune disease of uncertain etiology. Patients from different ancestral backgrounds demonstrate differences in clinical manifestations and autoantibody profiles. In this study we examined genome-wide transcriptional patterns in major immune cell subsets across different ancestral backgrounds. Methods: Peripheral blood was collected from 21 African-American (AA) and 21 European-American (EA) SLE patients, 5 AA controls, and 5 EA controls. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

208 Samples

Download data: TXT

(Submitter supplied) Gene expression profile studies have identified an interferon signature in whole blood or mononuclear cell samples from patients with systemic lupus erythematosus. This study was designed to determine whether specific lymphocyte and myeloid subsets freshly isolated from the blood of systemic lupus erythematosus patients demonstrated unique gene expression profiles compared to subsets isolated from healthy controls. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4185

Platform:

GPL96

67 Samples

Download data: CEL

Analysis of freshly isolated lymphocyte (CD4+ T cells and CD19+ B cells) and CD33+ myeloid subsets from the blood of Systemic Lupus Erythematosus (SLE) patients. Results provide insight into the molecular mechanisms underlying SLE pathogenesis.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 cell type, 2 disease state sets

Platform:

GPL96

Series:

GSE10325

67 Samples

Download data: CEL

(Submitter supplied) Objective: Systemic lupus erythematosus (SLE) has limited monozygotic (MZ) twin concordance, implying a role for other pathogenic factors than genetic variation, such as epigenetic changes. Using the disease discordant twin model, we investigated genome-wide DNA methylation changes in sorted CD4+ T-cells, monocytes, granulocytes and B-cells in twin pairs with at least one SLE-affected twin. Methods: Peripheral blood from 15 SLE twin pairs (six MZ, nine dizygotic (DZ)) was processed using gradient density centrifugation for the granulocyte fraction. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

104 Samples

Download data: CSV, IDAT

(Submitter supplied) 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.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

434 Samples

Download data: TXT

(Submitter supplied) Systemic lupus erythematosus (SLE) is an incurable autoimmune disease disproportionately affecting women. A major obstacle in finding targeted therapies for SLE is its remarkable heterogeneity in clinical manifestations as well as in the involvement of distinct cell types. To identify cell-specific targets as well as cross-correlation relationships among expression programs of different cell types, we here analyze six major circulating immune cell types from SLE patient blood. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

288 Samples

Download data: TXT

(Submitter supplied) Participants were recruited from the California Lupus Epidemiology Study (CLUES). CLUES was approved by the Institutional Review Board of the University of California, San Francisco. Peripheral blood mononuclear cells were isolated from patient donors. Cells were isolated from peripheral blood utilizing magnetic beads (CD14+monocytes, B cells, CD4+T cells and NK cells) using EasySep protocol from STEM cell technologies on 120 patients. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

480 Samples

Download data: CSV

(Submitter supplied) Systemic lupus erythematosus (SLE) is a heterogeneous disease which leads to different levels of serum autoantibodies to RNA-binding proteins (anti-RBP) and interferon-α (IFN-α), which plays an important pathogenic role in SLE, between European-American (EA) and African-American (AA) patients. We aimed to explore how IFN-related gene expression pathways differ in patients according to their ancestry and anti-RBP profile

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

49 Samples

Download data: CEL

(Submitter supplied) In this study, we analyzed the transcriptomes of ~276k single PBMCs from 33 childhood SLE (cSLE) and 11 healthy matched donors (cHD). Our findings were validated in an independent cohort including 8 adult SLE (aSLE) patients and 6 matched controls (aHD; ~132k PBMCs).

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

56 Samples

Download data: MTX, TSV

(Submitter supplied) To investigate ISGs expression chracteristics of leucocyte types of SLE patients, single cell RNA sequencing was applied to 2 SLE patients and 1 health volunteer.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

3 Samples

Download data: MTX, TSV

(Submitter supplied) Epienome-wide DNA methylation profiling of systemic lupus erythematosus (SLE). The Illumina HumanMethylation450K Beadchip was used to obtain DNA methylation profiles across approximately 450,000 CpGs in normal human blood samples from females. Samples included 33 non-SLE female patients (control) and 57 SLE female patients. SLE patients:- Ethnicity included 39 African americans and 18 European Americans. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

90 Samples

Download data: IDAT

(Submitter supplied) This study demonstrates quantitative and qualitative differences between type I IFN signatures in autoimmunity and viral infection using purified CD4pos T cells and CD16pos- and CD16neg-monocyte subsets. We were able to discriminate between cell-specific viral response signatures and the pathogenically amplified IFN signatures observed in autoimmunity. The differences were of both a qualitative and quantitative nature, as the signatures in the patients with SLE were characterized by much more complexly compiled gene patterns with increased absolute gene expression levels.

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS4888 GDS4889 GDS4890

Platform:

GPL570

36 Samples

Download data: CEL, CHP

Analysis of CD16+ monocytes from SLE patients and YFV-immunized healthy donors. The YFV immunization can be regarded as a real viral infection, based on clinical/serological manifestations. Results provide insight into differences in type I interferon responses in autoimmunity and viral infection.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state, 7 individual, 3 protocol sets

Platform:

GPL570

Series:

GSE51997

10 Samples

Download data: CEL, CHP

Analysis of CD16- monocytes from SLE patients and YFV-immunized healthy donors. The YFV immunization can be regarded as a real viral infection, based on clinical/serological manifestations. Results provide insight into differences in type I interferon responses in autoimmunity and viral infection.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state, 8 individual, 3 protocol sets

Platform:

GPL570

Series:

GSE51997

12 Samples

Download data: CEL, CHP

Analysis of CD4+ T cells from SLE patients and YFV-immunized healthy donors. The YFV immunization can be regarded as a real viral infection, based on clinical/serological manifestations. Results provide insight into differences in type I interferon responses in autoimmunity and viral infection.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state, 10 individual, 3 protocol sets

Platform:

GPL570

Series:

GSE51997

14 Samples

Download data: CEL, CHP

(Submitter supplied) Background: Patients with paediatric-onset systemic lupus erythematosus (SLE) often present with more severe clinical courses than adult-onset patients. Although genome-wide DNA methylation (DNAm) profiling has been performed in adult-onset SLE patients, parallel data on paediatric-onset SLE are not available. Therefore, we undertook a genome-wide DNAm study in paediatric-onset SLE patients across multiple blood cell lineages. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

145 Samples

Download data: IDAT, TXT

(Submitter supplied) Systemic lupus erythematosus (SLE) affects 1 in 537 of African American (AA) women, which is >2-fold more than European American (EA) women. AA patients also develop the disease at a younger age, have more severe symptoms, and a greater chance of early mortality. We used a multi-omics approach to uncover ancestry-specific immune alterations in SLE patients and healthy controls that may contribute to disease disparities. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

30 Samples

Download data: CSV, RDS, TAR

(Submitter supplied) Systemic lupus erythematosus (SLE) is a heterogeneous autoimmune disease. Knowledge of circulating immune cell types and cell states associated with SLE remains incomplete. We profiled over 1.2 million PBMCs (162 cases, 99 controls) with multiplexed single-cell RNA-seq (mux-seq). Cases exhibited prominent expression of type-1 interferon-stimulated genes (ISG) in monocytes, reduction of naïve CD4+ T cells that correlated with monocyte ISG expression, and expansion of repertoire-restricted cytotoxic GZMH+ CD8+ T cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

88 Samples

Download data: H5AD

(Submitter supplied) Systemic lupus erythematosus (SLE) is a chronic relapsing autoimmune disease characterized by the production of autoantibodies and multiple organ involvement. In this study, we investigated genome-wide DNA methylation changes in the CD8+ T cells from 8 pairs of lupus patients compared to age, sex, and ethnicity matched healthy controls.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL23976

16 Samples

Download data: IDAT, TXT

(Submitter supplied) Extrarenal viral infections commonly trigger glomerulonephritis mostly in association with immune complex disease. The immunoglobulin component of immune complexes can activate glomerular cell Fc receptors but whether complexed viral nucleic acids contribute to glomerular inflammation remains unknown. Glomerular mesangial cells express TLR3 but lack TLR7-9, hence, it is unclear whether mesangial cells can recognize and respond to viral ssRNA or DNA. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

9 Samples

Download data: CEL