Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

DNA methylation entropy as a measure of stem cell replication and aging

ABSTRACT: DNA methylation entropy as a measure of stem cell replication and aging

PROVIDER: PRJNA882112 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR21628000.fastq.gz	Fastqsanger.gz
	SRR21628100.fastq.gz	Fastqsanger.gz
	SRR21628001.fastq.gz	Fastqsanger.gz
	SRR21628101.fastq.gz	Fastqsanger.gz
	SRR21628002.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 328

Similar Datasets

DNA methylation entropy as a measure of stem cell replication and aging [BiSulfite-seq]

Project description:DNA methylation entropy as a measure of stem cell replication and aging [BiSulfite-seq]

| PRJNA882035 | ENA

DNA methylation entropy as a measure of stem cell replication and aging [RNA-seq]

Project description:DNA methylation entropy as a measure of stem cell replication and aging [RNA-seq]

| PRJNA882111 | ENA

DNA methylation entropy is a biomarker for aging

Project description:DNA methylation entropy is a biomarker for aging

| PRJNA1216266 | ENA

DNA methylation entropy is a biomarker for aging

Project description:The dynamic nature of epigenetic modifications has been leveraged to construct epigenetic clocks that accurately predict an individual’s age based on DNA methylation levels. Here we explore whether the accumulation of epimutations, which can be quantified by Shannon’s entropy, changes reproducibly with age. Using targeted bisulfite sequencing, we analyzed the associations between age, entropy, and methylation levels in human buccal swab samples. We find that epigenetic clocks based on the entropy of methylation states predict chronological age with similar accuracy as common approaches that are based on methylation levels of individual cytosines. Our approach suggests that across many genomic loci, methylation entropy changes reproducibly with age.

2025-01-27 | GSE288139 | GEO

DNA methylation entropy as a measure of stem cell replication and aging [BiSulfite-seq]

Project description:We report age related DNA methylation changes in mice in Small intestine, Colon, Heart, Lungs, Liver, Spleen, Kidney and Whole hlood across 3 different aging timepoints (4 month, 12 month, 24 month). For small intestine and colon there are 4 aging time points ( 4 month, 12 month, 18 month and 24 month)

2022-09-30 | GSE213628 | GEO

DNA methylation entropy as a measure of stem cell replication and aging [RNA-seq]

Project description:We report age related gene expression changes in mice in Small intestine, Colon, 3 different aging timepoints (4 month, 12 month, 24 month)

2022-09-30 | GSE213722 | GEO

DNA methylation entropy as a measure of stem cell replication and aging

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-09-30 | GSE213723 | GEO

DNA methylation entropy as a measure of stem cell replication and aging.

Project description:BackgroundEpigenetic marks are encoded by DNA methylation and accumulate errors as organisms age. This drift correlates with lifespan, but the biology of how this occurs is still unexplained. We analyze DNA methylation with age in mouse intestinal stem cells and compare them to nonstem cells.ResultsAge-related changes in DNA methylation are identical in stem and nonstem cells, affect most prominently CpG islands and correlate weakly with gene expression. Age-related DNA methylation entropy, measured by the Jensen-Shannon Distribution, affects up to 25% of the detectable CpG sites and is a better measure of aging than individual CpG methylation. We analyze this entropy as a function of age in seven other tissues (heart, kidney, skeletal muscle, lung, liver, spleen, and blood) and it correlates strikingly with tissue-specific stem cell division rates. Thus, DNA methylation drift and increased entropy with age are primarily caused by and are sensors for, stem cell replication in adult tissues.ConclusionsThese data have implications for the mechanisms of tissue-specific functional declines with aging and for the development of DNA-methylation-based biological clocks.

| S-EPMC9933260 | biostudies-literature

Spectral entropy as a measure of the metaproteome complexity

Project description:The diversity and complexity of the microbiome's genomic landscape are not always mirrored in its proteomic profile. Despite the anticipated proteomic diversity, observed complexities of microbiome sample are often lower than expected. Two main factors contribute to this discrepancy: limitations in mass spectrometry's detection sensitivity and bioinformatics challenges in metaproteomics identification. This study introduces a novel approach to evaluating sample complexity directly at the full mass spectrum (MS1) level rather than relying on peptide identifications. When analyzing under identical mass spectrometry conditions, microbiome samples displayed significantly higher complexity, as evidenced by the spectral entropy and peptide candidate entropy, compared to single-species samples. The research provides solid evidence for the complexity of microbiome in proteomics indicating the optimization potential of the bioinformatics workflow.

2024-05-27 | PXD050781 | Pride

In vivo DNA replication dynamics unveil aging-dependent replication stress

Project description:In vivo DNA replication dynamics unveil aging-dependent replication stress

| PRJNA965807 | ENA