GEO DataSets

(Submitter supplied) This DNA methylation dataset describes epigenomic changes in astrocytes culture in vitro with passaging, in the context of studies examining cellular aging patterns that are conserved in vivo and in vitro. Fetal astrocytes were derived from cerebral cortex. Cells were grown under normoxic conditions and exhaustively passaged until cellular senescence. Longitudinal DNA samples were collected throughout passaging and DNA methylation was measured using the Infinium HumanMethylationEPIC BeadChip. more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

63 Samples

Download data: IDAT

(Submitter supplied) Genome wide DNA methylation profiling of normal colon samples. The Illumina Infinium HumanMethylation450 and EPIC Beadchip arrays were used to obtain DNA methylation profiles across approximately 450,000 and 850,000 CpGs. Samples were from nomal colons of 334 subjects with low, medium or high CRC risk according to their personal adenoma or cancer history.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platforms:

GPL21145 GPL13534

334 Samples

Download data: IDAT

(Submitter supplied) DNA methylation data from rhesus macaque (Macaca mulatta) profiled on the mammalian methylation array (HorvathMammalMethylChip40) which focuses on highly conserved CpGs across mammalian species. We profiled n = 283 tissue samples (blood, skin, adipose, kidney, liver, lung, muscle, and cerebral cortex)

Organism:

Mus musculus; Macaca mulatta; Homo sapiens; Rattus norvegicus

Type:

Methylation profiling by array

Platform:

GPL28271

283 Samples

Download data: CSV, DOCX, IDAT

(Submitter supplied) DNA methylation data from vervet cerebral cortex, blood, and liver using highly conserved mammalian CpGs represented on the mammalian methylation array (HorvathMammalMethylChip40). We selected a total of 240 samples representing the entire vervet lifespan, from neonatal to senile stages: 144 samples from the peripheral blood, 48 samples from the liver, and 48 samples from the cortical brain area BA10.

Organism:

Rattus norvegicus; Homo sapiens; Chlorocebus sabaeus; Mus musculus

Type:

Methylation profiling by array

Platform:

GPL28271

240 Samples

Download data: CSV, DOCX, IDAT

(Submitter supplied) Background: DNA methylation is influenced by both environmental and genetic factors and is increasingly thought to affect variation in complex traits and diseases. Yet, the extent of ancestry-related differences in DNA methylation, its genetic determinants, and their respective causal impact on immune gene regulation remain elusive. Results: We report extensive population differences in DNA methylation between 156 individuals of African and Europeandescent —detected in primary monocytes that were used as a model of a major innate immunity cell type. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL23976

156 Samples

Download data: CSV

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

Organism:

Homo sapiens; Mus musculus

Type:

Methylation profiling by array; Methylation profiling by high throughput sequencing

8 related Platforms

175 Samples

Download data: IDAT

(Submitter supplied) These data are published in a series with the TIME-Seq sequencing data. TIME-Seq is a method for efficient methylation sequencing, primarily used for epigenetic clock analysis.

Organism:

Mus musculus

Type:

Methylation profiling by array

Platform:

GPL30650

48 Samples

Download data: IDAT, TXT

(Submitter supplied) These data are published in a series with the TIME-Seq sequencing data. TIME-Seq is a method for efficient methylation sequencing, primarily used for epigenetic clock analysis.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL21145

24 Samples

Download data: IDAT, TXT

(Submitter supplied) We report a high-throughput and low-cost targeted bisulfite sequencing method called TIME-Seq for discovery and assay of DNA methylation clocks. Data is related to the initial publication of TIME-Seq clocks and shallow sequencing-based predictions using scAge. Demultiplexing information as well as more detailed metadata for each sample in the pools will be posted at: https://github.com/patricktgriffin/TIME-Seq

Organism:

Homo sapiens; Mus musculus

Type:

Methylation profiling by high throughput sequencing

6 related Platforms

103 Samples

Download data

(Submitter supplied) Chronological age prediction from DNA methylation sheds light on human aging, indicates poor health and predicts lifespan. Previous studies developed methylation clocks based on linear regression models on methylation array data. While accurate, these models are limited to fixed-rate changes in methylation levels across age. Moreover, the high cost of methylation arrays, compared to targeted-PCR sequencing, hinders widespread utility of such predictors. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array; Third-party reanalysis

Download data: CSV

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

Organism:

Mus musculus

Type:

Methylation profiling by high throughput sequencing; Third-party reanalysis

Platforms:

GPL21103 GPL17021

549 Samples

Download data: CSV, TXT

(Submitter supplied) Human DNA-methylation data have been used to develop highly accurate biomarkers of aging ("epigenetic clocks"). Recent studies demonstrate that similar epigenetic clocks for mice (Mus Musculus) can be slowed by gold standard anti-aging interventions such as calorie restriction and growth hormone receptor knock-outs. Using DNA methylation data from previous publications with data collected in house for a total 1189 samples spanning 193,651 CpG sites, we developed 4 novel epigenetic clocks by choosing different regression models (elastic net- versus ridge regression) and by considering different sets of CpGs (all CpGs vs highly conserved CpGs). more...

Organism:

Mus musculus

Type:

Methylation profiling by high throughput sequencing; Third-party reanalysis

Download data: TXT

(Submitter supplied) Human DNA-methylation data have been used to develop highly accurate biomarkers of aging ("epigenetic clocks"). Recent studies demonstrate that similar epigenetic clocks for mice (Mus Musculus) can be slowed by gold standard anti-aging interventions such as calorie restriction and growth hormone receptor knock-outs. Using DNA methylation data from previous publications with data collected in house for a total 1189 samples spanning 193,651 CpG sites, we developed 4 novel epigenetic clocks by choosing different regression models (elastic net- versus ridge regression) and by considering different sets of CpGs (all CpGs vs highly conserved CpGs). more...

Organism:

Mus musculus

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL21103 GPL17021

549 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Methylation profiling by array

Platforms:

GPL24676 GPL21145

403 Samples

Download data: IDAT

(Submitter supplied) Given the salient role of early-life adversity (ELA) and the resulting biological embedding in disease risk, there is a critical need to understand the mechanisms operating at multiple levels of analysis in order to promote effective clinical treatments and intervention efforts for survivors. An example for such an effort could be to utilize models of dynamic cellular markers as individual-level factors to account for variation in intervention response and clinical outcomes. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

221 Samples

Download data: CSV

(Submitter supplied) Given the salient role of early-life adversity and the resulting biological embedding in disease risk, there is a critical need to understand the mechanisms operating at multiple levels of analysis in order to promote effective clinical treatments and intervention efforts for survivors. An example for such an effort could be to utilize models of dynamic cellular markers as individual-level factors to account for variation in intervention response and clinical outcomes. more...

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL21145

182 Samples

Download data: CSV, IDAT

(Submitter supplied) DNA methylation data for 479 women from 130 families including 66 monozygotic twin pairs, 66 dizygotic twin pairs and 215 sisters of twins.

Organism:

Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL13534

479 Samples

Download data: TXT

(Submitter supplied) DNA methylation data from common marmosets (Callithrix jacchus) profiled on the mammalian methylation array (HorvathMammalMethylChip40) which focuses on highly conserved CpGs across mammalian species. Rapamycin study in a subset of animals.

Organism:

Homo sapiens; Mus musculus; Callithrix jacchus; Rattus norvegicus

Type:

Methylation profiling by array

Platform:

GPL28271

96 Samples

Download data: CSV, DOCX, IDAT