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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Correlated DNA methylation clusters in whole blood

ABSTRACT: Genome-wide DNA methylation level was studied to identify the clustering of correlated DNA methylation at CpGs in whole blood. We used Illumina HumanMethylation450 BeadChip array to identify the clustering of correlated DNA methylation in whole blood from normal individuals from Baltimore Longitudinal Study of Aging (BLSA). Bisulphite converted DNA from normal individuals were hybridized to the Illumina Illumina HumanMethylation450 BeadChip arrays

ORGANISM(S): Homo sapiens

SUBMITTER: Yun Liu

PROVIDER: E-GEOD-54882 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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GeMes, clusters of DNA methylation under genetic control, can inform genetic and epigenetic analysis of disease.

Liu Yun Y Li Xin X Aryee Martin J MJ Ekström Tomas J TJ Padyukov Leonid L Klareskog Lars L Vandiver Amy A Moore Ann Zenobia AZ Tanaka Toshiko T Ferrucci Luigi L Fallin M Daniele MD Feinberg Andrew P AP

American journal of human genetics 20140320 4

Epigenetic marks such as DNA methylation have generated great interest in the study of human disease. However, studies of DNA methylation have not established population-epigenetics principles to guide design, efficient statistics, or interpretation. Here, we show that the clustering of correlated DNA methylation at CpGs was similar to that of linkage-disequilibrium (LD) correlation in genetic SNP variation but for much shorter distances. Some clustering of methylated CpGs appeared to be genetic ...[more]

PMID: 24656863

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Project description:Genome-wide DNA methylation level was studied to identify the clustering of correlated DNA methylation at CpGs in whole blood. We used Illumina HumanMethylation450 BeadChip array to identify the clustering of correlated DNA methylation in whole blood from normal individuals from Baltimore Longitudinal Study of Aging (BLSA).

2014-03-25 | GSE54882 | GEO

Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis (Illumina)

Project description:This study identified DNA methylation patterns that were associated with tumor subtypes, disease outcome, and distinct metabolome and gene expression patterns. This study performed a large scale DNA methylation (Illumina HumanMethylation450 BeadChip [HumanMethylation450 15017482 v.1.1], N=72), gene expression (Affymetrix Human Gene 1.0 ST Array [HuGene-1_0-st], N=108), and metabolome (Metabolon, Inc. Durham, NC) analysis of fresh-frozen human breast tumors from African-American and European-American patients from the greater Baltimore area, Maryland (US), with survival follow-up.

2013-11-01 | E-GEOD-37754 | biostudies-arrayexpress

DNA methylation in colon mucosa samples from individuals with Crohns' disease or ulcerative colitis and normal controls

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2013-06-01 | E-GEOD-32146 | biostudies-arrayexpress

DNA methylation data from 11 periodontitis cases and 12 age-matched healthy individuals

Project description:Microarray methylation (Infinium® HumanMethylation450 BeadChip from Illumina) was performed on gingival tissue samples from 11 periodontitis cases and 12 age-matched healthy individuals. Bisulphite converted DNA from the 23 samples were hybridised to the Illumina Infinium 450k Human Methylation Beadchip

2015-07-01 | E-GEOD-53849 | biostudies-arrayexpress

Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis (Affymetrix)

Project description:This study identified DNA methylation patterns that were associated with tumor subtypes, disease outcome, and distinct metabolome and gene expression patterns. This study performed a large scale DNA methylation (Illumina HumanMethylation450 BeadChip [HumanMethylation450 15017482 v.1.1], N=73), gene expression (Affymetrix Human Gene 1.0 ST Array [HuGene-1_0-st], N=108), and metabolome (Metabolon, Inc. Durham, NC) analysis of fresh-frozen human breast tumors from African-American and European-American patients from the greater Baltimore area, Maryland (US), with survival follow-up.

2013-11-01 | E-GEOD-37751 | biostudies-arrayexpress

Association of DNA Methylation with Acute Mania and Inflammatory Markers

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Symmetrical dose-dependent DNA methylation profiles in children with deletion or duplication of chromosome 7q11.23

Project description:Genome wide DNA methylation in blood derived DNA from individuals with deletion or duplication of 7q11.23 Bisulfite converted DNA was hybridized onto the Illumina Infinium HumanMethylation450 BeadChip array

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Project description:Genome wide DNA methylation profiling of Crohn's disease, ulcerative colitis, and normal peripheral blood samples. The Illumina Infinium HumanMethylation450 BeadChip v1.1 was used to obtain DNA methylation profiles across 482,421 CpGs in peripheral blood samples. Samples came from 17 Crohn's disease affected, 11 ulcerative colitis affected, and 20 normal individuals. Within these samples were three twin sets discordant for Crohn's disease and three twin sets discordant for ulcerative colitis. Bisulfite converted DNA from the 48 samples were hybridized to the Illumina Infinium HumanMethylation450 BeadChip v1.1

2012-04-04 | E-GEOD-32148 | biostudies-arrayexpress

Short-term exposure to diesel exhaust is associated with dynamic changes in DNA methylation of circulating mononuclear cells in asthmatics

Project description:DNA methylation in asthmatics after short-term exposure to diesel exhaust This cohort consist of genomic DNA extracted from 16 individuals under 6 distinct conditions, bisulphite converted and hybridized to the Illumina Infinium HumanMethylation450 Beadchip for genome wide DNA methylation profiling.

2014-04-08 | E-GEOD-56553 | biostudies-arrayexpress

Genome wide DNA methylation analysis of arsenic exposure and non-exposure population and patients with skin lesions

Project description:Genome wide DNA methylation profiling of arsenic exposure and non-exposure population and patients with skin leisons. The Illumina Infinium HumanMethylation450 BeadChip (HM450K) was used to obtain DNA methylation profiles across approximately 450,000 CpGs in genomic DNA extracted from blood buffy coat samples. Samples included 66 arsenic exposure individuals, 35 non-exposure individuals and 18 arsenical skin lesion patients.

2018-07-10 | GSE109914 | GEO

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