GEO DataSets

(Submitter supplied) Tobacco smoking alters DNA methylation profiles of immune cells which may underpin some of the pathogenesis of smoking-associated diseases. However, approaches linking smoking-driven epigenetic effects in specific immune cell types with disease risk are limited. We isolated six leukocyte subtypes, CD14+ monocytes, CD15+ granulocytes, CD19+ B cells, CD4+ T cells, CD8+ T cells, and CD56+ natural killer cells, from whole blood of healthy adult smokers and nonsmokers for epigenome-wide association study (EWAS).

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platforms:

GPL13534 GPL29753

876 Samples

Download data: IDAT, TXT

(Submitter supplied) To investigate blood biomarkers of smokers and to provide molecular basis of B cell subtype shift from naïve to memory in smokers, total RNA from peripheral CD19+ B cells isolated from healthy adult smokers and nonsmokers was subjected to RNA-Seq and data were analyzed with covariates including age, race, sex, BMI, estimated CD4+T cell%, CD8+T cell%, natural killer (NK) cell%, monocyte%, granulocyte%, or naive B cell%.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

35 Samples

Download data: TXT

(Submitter supplied) To better characterize smoking–associated methylation changes in whole blood, we used Illumina HumanMethylation450 BeadChip to assess DNA samples from current (SM, n=172) and never smokers (NS, n=81).

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

253 Samples

Download data: IDAT, TXT

(Submitter supplied) Healthy ex vivo biopsies from masticatory mucosa from 17 current and 21 never smokers were analysed using whole transcriptome RNA sequencing (16 mio reads/sample), showing significantly increased expression of CYP1B1 in smokers compared to non-smokers (p = 2.2 × 10−14), together with 13 significantly upregulated transcripts. Six transcripts were significantly downregulated.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21290

38 Samples

Download data: TXT

(Submitter supplied) Background Chronological aging-associated changes in the human DNA methylome are studied by multiple epigenome-wide association studies (EWAS); however, the aging-associated DNAmet changes identified among different age groups and tissues vary and especially the rates of aging-associated alterations in the epigenome during adulthood remain unclear. Here, we further explore and characterize CpG-sites where DNA methylation levels alter at a constant rate during adulthood and are also independent of blood cell type heterogeneity. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

184 Samples

Download data: TXT

(Submitter supplied) Gene expression profiles were compared to investigate age-marking differential gene expression.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

881 Samples

Download data: TXT

(Submitter supplied) DNA methylation profiles for whole blood, CD4 T cells, CD8 T cells, B cells, Monocytes, Granulocytes, nasal epithelial cells and buccal cells purified from 30 individuals

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL21145

217 Samples

Download data: CSV

(Submitter supplied) DNA methylation profiles for CD4 T cells, CD8 T cells, B cells, Monocytes and Granulocytes purified from 28 individuals

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL21145

145 Samples

Download data: CSV, IDAT

(Submitter supplied) DNA methylation is an epigenetic event whose pattern is altered frequently in a wide variety of human diseases. Smoking affects DNA methylation possibly leading to abnormal expression of a broad spectrum of genes which in turn may result to the various side effects and diseases associated with smoking. The long term effects of smoking have been widely studied but the mechanism(s) by which those effects may be reversible by smoking cessation are not clearly understood. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

464 Samples

Download data: TXT

(Submitter supplied) This study performed a genome-wide methylation analysis of positively isolated CD19+ B cells in rheumatoid arthritis (RA) and healthy controls. The Ilumina HumanMethylation450 BeadChip was uset to obtain the methylation levels at >400,000 CpG sites. Samples include 49 RA patients and 73 healthy controls.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

122 Samples

Download data: IDAT

(Submitter supplied) We performed an epigenome-wide association study (EWAS) of allergic sensitization using nasal epithelial cell DNA from 474 subjects.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL32946

474 Samples

Download data: IDAT, TXT

(Submitter supplied) We performed an epigenome-wide association study (EWAS) of allergic sensitization using nasal epithelial cell DNA from 280 subjects.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL32946

280 Samples

Download data: IDAT, TXT

(Submitter supplied) We performed an epigenome-wide association study (EWAS) of allergic sensitization using nasal epithelial cell DNA from 280 subjects.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

280 Samples

Download data: IDAT, TXT

(Submitter supplied) In the first decade of life, high-asthma risk urban children develop stable phenotypes of respiratory health versus disease that link early life environmental exposures to childhood allergic sensitization and asthma. Moreover, unique patterns of nasal gene expression demonstrate how specific molecular pathways underlie distinct respiratory phenotypes, including allergic and non-allergic asthma.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

353 Samples

Download data: CSV

(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) The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 480,000 CpGs in a total of 96 samples, including 8 hyperplasias, 33 endometrial cancers and 53 metastases, as well as 2 cell-lines.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL16304

96 Samples

Download data: IDAT

(Submitter supplied) Smoking-associated DNA hypomethylation has been observed in blood cells and linked to lung cancer risk. However, its cause and mechanistic relationship to lung cancer remain unclear. We studied the association between tobacco smoking and epigenome-wide methylation in non-tumor lung (NTL) tissue from 237 lung cancer cases in the Environment And Genetics in Lung cancer Etiology study, using the Infinium HumanMethylation450 BeadChip. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

Platform:

GPL11154

8 Samples

Download data: BED, BW

(Submitter supplied) Smoking-associated DNA hypomethylation has been observed in blood cells and linked to lung cancer risk. However, its cause and mechanistic relationship to lung cancer remain unclear. We studied the association between tobacco smoking and epigenome-wide methylation in non-tumor lung (NTL) tissue from 237 lung cancer cases in the Environment And Genetics in Lung cancer Etiology study, using the Infinium HumanMethylation450 BeadChip. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

11 Samples

Download data: TXT

(Submitter supplied) DNA methylation data derived from total CD4+ T-cells from a cohort of paediatric food allergy. There are 12 food allergic samples (6 activated and matched control), 12 non-allergic samples (6 activated and matched control) collected at birth and resample at 12-months, total 48 samples. Mononuclear cells were either activated with anti-CD3 (0.5 ug/mL) + IL2(20U) or rested in media alone for 24 hours. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

48 Samples

Download data: TXT

(Submitter supplied) Epigenome-wide association study (EWAS) of blood samples from a case-control study of bladder cancer. The Illumina Infinium 27k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 27,000 CpGs in peripheral blood. Samples included peripheral blood samples from 223 incident cases of bladder cancer and 205 control subjects.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL8490

428 Samples

Download data: TXT