GEO DataSets

(Submitter supplied) The naked mole-rat, Heterocephalus glaber (NMR), the longest-lived rodent with a maximum possible lifespan exceeding 33 years, is emerging as an important non-model organism for the study of longevity and healthspan. As such it is of significance and interest in the study of biomarkers for ageing in mammals. Recent breakthroughs in this field have indicated that ‘epigenetic clocks’ based on the temporal accumulation of DNA methylation at specific genomic sites can enable accurate age estimates for tissues across the lifespan of an individual. more...

Organism:

Heterocephalus glaber

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL27526

39 Samples

Download data: CSV

(Submitter supplied) We used blood samples from Macaque to determine rate of change of methylation with respect to age.

Organism:

Homo sapiens; Macaca mulatta

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

6 Samples

Download data

(Submitter supplied) We used liver samples from TC1 Mice to determine rate of change of methylation with respect to age.

Organism:

Mus musculus; Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

6 Samples

Download data: TXT

(Submitter supplied) We used liver samples from Naked Mole Rat to determine rate of change of methylation with respect to age.

Organism:

Heterocephalus glaber

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL24046

24 Samples

Download data: TXT

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

Organism:

Mus musculus; Heterocephalus glaber; Macaca mulatta; Homo sapiens; Canis lupus familiaris

Type:

Methylation profiling by high throughput sequencing; Methylation profiling by genome tiling array

Platforms:

GPL24046 GPL13534 GPL22370

84 Samples

Download data: TXT

(Submitter supplied) We used buccal samples from two different dog breeds with well established differences in average lifespan to perform genome-scale identification of ageing-associated differentially methylated positions (aDMPs) in a total of 48 different dogs. A significant proportion of aDMPs that gained methylation with age replicated in an independent cohort. Furthermore, we also show that human aDMPs show similar ageing-associated dynamics at the homologous genomic regions in the dog. more...

Organism:

Canis lupus familiaris

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL22370

48 Samples

Download data: TXT

(Submitter supplied) The naked mole-rat (NMR) is an exceptionally long-lived rodent that does not show increased mortality with age, uniquely defining NMR as a demographically non-aging mammal. Here, we performed bisulfite sequencing on over one hundred NMR blood samples differing in age, assessing more than 3 million common CpG sites. We observed an information loss of the NMR methylome during aging suggesting that NMR ages. more...

Organism:

Heterocephalus glaber

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL21195

107 Samples

Download data: COV

(Submitter supplied) Background: DNA-methylation changes at a discrete set of sites in the human genome are predictive of chronological and biological age. However, it is not known whether these changes are causative or a consequence of an underlying ageing programme. It has also not been shown whether this ‘epigenetic clock’ is unique to humans or conserved in other animals such as the experimentally tractable mouse. Results: We have generated a comprehensive set of whole genome base-resolution methylation maps from multiple mouse tissues spanning a wide range of ages. more...

Organism:

Mus musculus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL13112

62 Samples

Download data: TXT

(Submitter supplied) Cytosine methylation data generated on mammalian methylation platform

Organism:

Orcinus orca; Mus musculus; Rattus norvegicus; Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL28271

140 Samples

Download data: CSV, IDAT

(Submitter supplied) Cytosine methylation data generated on mammalian methylation platform

Organism:

Homo sapiens; Mus musculus; Rattus norvegicus; Balaena mysticetus

Type:

Methylation profiling by array

Platform:

GPL28271

105 Samples

Download data: CSV, IDAT

(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:

GPL17021 GPL21103

549 Samples

Download data: TXT

(Submitter supplied) The goal was to find genes which are differentially expressed between the naked mole-rat (Heterocephalus glaber) and the wild-type mice liver tissue. The genes which are most differentially expressed may provide a clue for the remarkable differences between naked mole-rat and mouse in terms of longevity, cancer resistance and adaptation to subterranean environments.

Organism:

Heterocephalus glaber; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL9185 GPL13940

2 Samples

Download data: TXT

(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:

Macaca mulatta; Homo sapiens; Rattus norvegicus; Mus musculus

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:

Homo sapiens; Chlorocebus sabaeus; Mus musculus; Rattus norvegicus

Type:

Methylation profiling by array

Platform:

GPL28271

240 Samples

Download data: CSV, DOCX, IDAT

(Submitter supplied) DNA methylation levels in whole blood measured over a ten years follow up in an elderly birth cohort of 86 samples

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

180 Samples

Download data: IDAT, TXT

(Submitter supplied) Cytosine methylation data generated on mammalian methylation platform

Organism:

Mus musculus; Homo sapiens; Odobenus rosmarus divergens; Phoca groenlandica; Zalophus californianus; Phoca vitulina; Rattus norvegicus; Eumetopias jubatus; Neophoca cinerea

Type:

Methylation profiling by array

Platform:

GPL28271

171 Samples

Download data: CSV, IDAT

(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:

Mus musculus; Callithrix jacchus; Rattus norvegicus; Homo sapiens

Type:

Methylation profiling by array

Platform:

GPL28271

96 Samples

Download data: CSV, DOCX, IDAT

(Submitter supplied) Genome wide DNA methylation profiling of captive chimpanzees of ages spanning the chimpanzee lifespan (whole blood) Methylation levels have been shown to change with age at sites across the human genome. Change at some of these sites is so consistent across individuals that it can be used as an “epigenetic clock” to predict an individual’s chronological age within a few years. Studies of age-related epigenetic change in other mammals, including mice, whales, and canids, show that some but not all of the same loci as in humans undergo age-associated methylation changes. more...

Organism:

Homo sapiens; Pan troglodytes

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

113 Samples

Download data: CSV, IDAT