GEO DataSets

(Submitter supplied) Epigenetic dysregulation is implicated in the pathogenesis of lupus. We performed a longitudinal analysis to assess changes in DNA methylation in neutrophils collected from 54 lupus patients over 4 years of follow up and across disease activity levels using 229 patient samples.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

229 Samples

Download data: IDAT

(Submitter supplied) We identified genome-wide DNA methylation patterns within neutrophils and low-density granulocytes of Lupus patients and demographically matched controls

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

38 Samples

Download data: TXT

(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) DNA methylation analysis using the Infinium HumanMethylation450 BeadChip platform (Illumina) of 96 Caucasian American, 96 Han Chinese American and 96 African American LCL samples determined differences in terms of differentially methylated sites. Importantly, the observed differences were confirmed in primary blood samples of 10 healthy Caucasian, 10 African American (GSE36064) and 10 Asian individuals. more...

Organism:

Pan troglodytes; Pan troglodytes schweinfurthii; Pan troglodytes troglodytes; Homo sapiens; Pan troglodytes verus

Type:

Methylation profiling by array; Third-party reanalysis

Platform:

GPL13534

322 Samples

Download data: TXT

(Submitter supplied) Epigenetic alternations in addition to genetic factors are important contributors to the pathogenesis of Systemic Lupus Erythematosus (SLE). Recent studies revealed that aberrant changes in DNA methylation occur in SLE patients, and potentially contributes to the pathogenesis. Using genome-wide DNA methylation microarray, the Illumina Infinium HumanMethylation450 BeadChip, we compared the DNA methylation level of white blood cells between Chinese female SLE patients with that of healthy controls. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

22 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platforms:

GPL21145 GPL13534

1812 Samples

Download data: IDAT

(Submitter supplied) African-American individuals of the GENOA study

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

1394 Samples

Download data: IDAT, TXT

(Submitter supplied) African-American individuals of the GENOA study

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

418 Samples

Download data: IDAT, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Methylation profiling by genome tiling array

Platforms:

GPL13534 GPL10558

110 Samples

Download data

(Submitter supplied) Our study has demonstrated that significant number of differential genes in SLE was involved in IFN, TLR signaling pathways and inflammatory cytokines. The enrichment of differential genes has been associated with aberrant DNA methylation, which may be relevant to the pathogenesis of SLE. Our observations laid the groundwork for further diagnostic and mechanistic studies of SLE and LN.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

55 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Methylation profiling by array

Platforms:

GPL14550 GPL13534

141 Samples

Download data: IDAT, TXT

(Submitter supplied) We compared genomic DNA methylation patterns and gene expression in African American children with persistent atopic asthma versus healthy controls. We identified 119 differentially methylated regions (DMRs) and 118 differentially methylated probes (DMPs) after adjustment for age, gender, race/ethnicity, batch effects, inflation, and multiple comparisons (false discovery rate-adjusted q<0.05). Genes differentially methylated include those with established roles in asthma and atopy, components of the extracellular matrix, genes related to immunity, cell adhesion, epigenetic regulation, and airway obstruction. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14550

69 Samples

Download data: TXT

(Submitter supplied) Background: Nasal epithelia are emerging as a proxy measure of gene expression of the airway epithelium in asthma. We hypothesized that epigenetic marks regulate gene expression of the nasal epithelia and consequently may provide a novel target for allergic asthma. Methods: We compared genomic DNA methylation patterns and gene expression in African American children with persistent atopic asthma [N=36] versus healthy controls [N=36]. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

72 Samples

Download data: IDAT

(Submitter supplied) A microarray targeting promoters of cancer-related genes was used to evaluate DNA methylation at 935 CpG sites in 517 invasive breast tumors from the Carolina Breast Cancer Study (CBCS), a population-based study of invasive breast cancer. Concensus clustering using methylation (β) values for the 167 most variant CpG loci defined 4 clusters differing most distinctly in hormone receptor (HR) status, intrinsic subtype (luminal versus basal-like) and p53 mutation status. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL9183

526 Samples

Download data: TXT

(Submitter supplied) There is extensive variation in DNA methylation between individuals and ethnic groups. These differences can arise from a combination of genetic and non-genetic influences and potential modifiers include nutritional cues, early life experience, and social and physical environments. Here we have assayed genome-wide DNA methylation in neonatal cord blood from African American, European American, and other ancestral groups. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL8490

216 Samples

Download data: IDAT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL16791 GPL13534

196 Samples

Download data: IDAT

(Submitter supplied) We reAggressive high-grade, estrogen receptor negative (ER-) breast cancer is more common among American women of African ancestry (AA) than those of European ancestry (EA). The reasons remain largely unknown. Epigenetic mechanisms, particularly DNA methylation and altered microRNA (miRNA) expression, may contribute to racial differences in breast cancer. However, the characterization of this epigenetic modification in relation to ER+ and ER- breast cancer, and its functional role in the regulation of miRNA expression remains to be investigated, especially among high risk AA women. more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16791

58 Samples

Download data: CSV

(Submitter supplied) We reAggressive high-grade, estrogen receptor negative (ER-) breast cancer is more common among American women of African ancestry (AA) than those of European ancestry (EA). The reasons remain largely unknown. Epigenetic mechanisms, particularly DNA methylation and altered microRNA (miRNA) expression, may contribute to racial differences in breast cancer. However, the characterization of this epigenetic modification in relation to ER+ and ER- breast cancer, and its functional role in the regulation of miRNA expression remains to be investigated, especially among high risk AA women. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

138 Samples

Download data: IDAT, TXT

(Submitter supplied) Systemic lupus erythematosus (SLE) is a chronic-relapsing autoimmune disease of incompletely understood etiology. Recent evidence strongly supports an epigenetic contribution to the pathogenesis of lupus. To understand the extent and nature of dysregulated DNA methylation in lupus T cells, we performed a genome-wide DNA methylation study in CD4+ T cells from 12 lupus patients and 12 normal healthy controls. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL8490

23 Samples

Download data: TXT

(Submitter supplied) The Illumina Infinium 27k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 27,000 CpGs in whole blood samples from 172 normal female twins. See Bell, Tsai et al. Plos Genet. 2012;8(4):e1002629.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL8490

172 Samples

Download data: TXT