Evidence map›Paper›PMID 25880792›Full record

ArticleEpigenetics2015

Polycomb repressive complex 2 epigenomic signature defines age-associated hypermethylation and gene expression changes.

Mikhail G Dozmorov

Open access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Epigenetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.

0numbers the graph read from it
0cells of the map it votes in
46citing papers in PubMed
3.2field-weighted citation impact, top 8% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

46 citing papers in PubMed, 87 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

1 author at 1 institution in 1 country.

Mikhail G Dozmorova Department of Biostatistics; Virginia Commonwealth University ; Richmond , VA , USA.
Virginia Commonwealth University · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Although age-associated gene expression and methylation changes have been reported throughout the literature, the unifying epigenomic principles of aging remain poorly understood. Recent explosion in availability and resolution of functional/regulatory genome annotation data (epigenomic data), such as that provided by the ENCODE and Roadmap Epigenomics projects, provides an opportunity for the identification of epigenomic mechanisms potentially altered by age-associated differentially methylated regions (aDMRs) and regulatory signatures in the promoters of age-associated genes (aGENs). In this study we found that aDMRs and aGENs identified in multiple independent studies share a common Polycomb Repressive Complex 2 signature marked by EZH2, SUZ12, CTCF binding sites, repressive H3K27me3, and activating H3K4me1 histone modification marks, and a "poised promoter" chromatin state. This signature is depleted in RNA Polymerase II-associated transcription factor binding sites, activating H3K79me2, H3K36me3, H3K27ac marks, and an "active promoter" chromatin state. The PRC2 signature was shown to be generally stable across cell types. When considering the directionality of methylation changes, we found the PRC2 signature to be associated with aDMRs hypermethylated with age, while hypomethylated aDMRs were associated with enhancers. In contrast, aGENs were associated with the PRC2 signature independently of the directionality of gene expression changes. In this study we demonstrate that the PRC2 signature is the common epigenomic context of genomic regions associated with hypermethylation and gene expression changes in aging.

Indexed as

EpigenomicsAgingBinding SitesCCCTC-Binding FactorCell LineChromatinDNA MethylationEnhancer of Zeste Homolog 2 ProteinGene Expression RegulationHistonesHumansNeoplasm ProteinsPolycomb Repressive Complex 2Promoter Regions, GeneticProtein BindingProtein Structure, TertiaryCCCTC-Binding FactorChromatinCTCF protein, humanEnhancer of Zeste Homolog 2 ProteinEZH2 protein, humanHistonesNeoplasm ProteinsPolycomb Repressive Complex 2Repressor ProteinsSUZ12 protein, humanTranscription FactorsaDMR, age-associated differentially methylated regionaGEN, promoter of an age-associated geneagingENCODEENCODE, Encyclopedia of DNA elementsepigeneticsepigenomicsGenomeRunnermethylationpolycombPRC2PRC2, Polycomb repressive complex 2TFBS, transcription factor binding site

Identifiers

PMID25880792
PMCPMC4623031
OpenAlexW1480818485

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.