Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Methylation data from nine tissues from GTEx samples profiled with Infinium HumanMethylationEPIC BeadChip

ABSTRACT: Genome wide DNA methylation profiling of tissue samples from GTEx donors. The Infinium HumanMethylationEPIC BeadChip was used to obtain DNA methylation profiles across approximately 850,000 CpGs sites from 1000 tissue samples.

ORGANISM(S): Homo sapiens

PROVIDER: GSE213478 | GEO | 2022/09/16

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Methylation data from human retina samples profiled with Infinium HumanMethylationEPIC BeadChip

Project description:Age-related macular degeneration (AMD) is a complex multifactorial disease with at least 34 loci contributing to genetic susceptibility. To gain functional understanding of AMD genetics, we generated DNA methylation profiles of retina from 160 individuals including both controls and cases at distinct stages of AMD. With genotypes over 8 million common single nucleotide polymorphisms (SNPs) in cis, we identified 37,453 methylation quantitative trait loci (mQTL) and by integrating transcriptome of the same samples we identified 12,505 eQTLs and 13,747 DNAm sites that affect gene expression (eQTMs). We then integrated the AMD-genome-wide association studies (GWAS) data with mQTLs and eQTLs ascertained 87 target genes that may contribute to AMD risk. Our studies expand the methylation landscape of retina and AMD leading to direct targets for biological evaluation.

2023-09-11 | GSE231536 | GEO

Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip for DNA methylation profiling [WGBS]

Project description:Genome wide DNA methylation profiling of a suite of biological samples for technical evaluation of the HumanMethylationEPIC v2.0 BeadChip. Samples include prostate (LNCaP, PrEC) and breast cancer (MCF7, TAMR) cell lines, as well as primary tumour samples from prostate (SYN*) and breast (FD*).

2024-03-07 | GSE240481 | GEO

Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip for DNAmethylation profiling [EPIC v1]

2024-03-07 | GSE240412 | GEO

Characterization of imprinted methylation using the Illumina Infinium MethylationEPIC array platform

Project description:Bisulphite (BS) converted DNA from 2 paternal uniparental diploidies (pUPDs), one maternal (mUPD) and 5 control leukocytes samples were hybridized to the Infinium HumanMethylationEPIC BeadChip (Illumina), obtaining the BS DNA methylation profiles across approximately 850,000 CpGs. In addition, the 5 control leukocyte samples were also coverted using oxidative bisulphite (oxBS) treatment. The selective chemical oxidation of 5-hydroxymethylcytosine (5hmC) to 5-formylcytosine (5fC) and the deamination of the latter to uracil during the BS conversion allowed the quantification of independent 5-methylcytosine (5mC) and 5hmC methylation levels at every single CpG.

2018-07-11 | GSE103738 | GEO

Patient-derived primary cultures of paediatric high grade glioma and DIPG - molecular profiling by methylation array (Infinium HumanMethylationEPIC)

Project description:Molecular profiling by methylation array (Illumina Infinium HumanMethylationEPIC) in a panel of models generated under 2D (laminin matrix) and/or 3D (neurospheres) conditions fully credentialed by phenotypic and molecular comparison to the original tumour sample. Patient-derived in vitro primary cell cultures represent potentially useful tools for mechanistic and preclinical investigation based upon their retention of key features of tumour subgroups under experimental conditions amenable to high-throughput approaches.

2020-08-31 | E-MTAB-9297 | biostudies-arrayexpress

Genome-wide DNA methylation profiling in nine HMECs

Project description:Genome wide DNA methylation profiling of nine breast HMECs samples (184AA3, 184AA2, 184AA4, 184A1, 184D, 184BE1, 184B5, 184B5ME, 184FMY2). The Illumina Infinium 850k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 850,000 CpGs in nine breast HMECs samples.

2017-09-13 | GSE81939 | GEO

Characterisation and reproducibility of theHumanMethylationEPIC v2.0 BeadChip for DNAmethylation profiling [EPIC v2]

2024-03-07 | GSE240469 | GEO

Genome-wide DNA methylation analysis one year post-COVID-19 infection

Project description:Genome-wide DNA methylation analysis of COVID-19 severity using the Illumina HumanMethylationEPIC microarray platform to analyze over 850,000 methylation sites, comparing COVID-19 patients during and one year after infection, using whole blood tissue.

2022-02-23 | GSE197152 | GEO

Genome-wide DNA methylation analysis of COVID-19 severity

Project description:Genome-wide DNA methylation analysis of COVID-19 severity using the Illumina HumanMethylationEPIC microarray platform to analyze over 850,000 methylation sites, comparing COVID-19 patients with patients presenting with respiratory symptoms, but negative for COVID-19, using whole blood tissue.

2021-05-31 | GSE174818 | GEO

Association of frequent hypermethylation with high grade histological subtype in lung adenocarcinoma. (Infinium MethylationEPIC)

Project description:Comprehensive DNA methylation analysis of each histological LUAD subtype. Infinium MethylationEPIC BeadChip was used to obtain DNA methylation profiles across 850,000 CpG sites. Samples included 4 Micropapillary subtype, 5 Acinar subtype, 5 Solid subype.

2023-09-11 | GSE217731 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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