Evidence map›Paper›PMID 28081716›Full record

ArticleBMC molecular biology2017

Heterogeneous pattern of DNA methylation in developmentally important genes correlates with its chromatin conformation.

Puja Sinha, Kiran Singh, Manisha Sachan

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

Article in BMC molecular biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.6field-weighted citation impact, top 35% 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

1 citing paper in PubMed, 17 citations in OpenAlex.

  1. Review
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

3 authors at 2 institutions in 1 country.

Puja SinhaDepartment of Biotechnology, Motilal Nehru National Institute of Technology, Allahabad, 211004, India.
Kiran SinghDepartment of Molecular and Human Genetics, Banaras Hindu University, Varanasi, India.
Manisha SachanDepartment of Biotechnology, Motilal Nehru National Institute of Technology, Allahabad, 211004, India. manishas@mnnit.ac.in.
Motilal Nehru National Institute of Technology · INBanaras Hindu University · IN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundDNA methylation is a major epigenetic modification, playing a crucial role in the development and differentiation of higher organisms. DNA methylation is also known to regulate transcription by gene repression. Various developmental genes such as c-mos, HoxB5, Sox11, and Sry show tissue-specific gene expression that was shown to be regulated by promoter DNA methylation. The aim of the present study is to investigate the establishment of chromatin marks (active or repressive) in relation to heterogeneous methylation in the promoter regions of these developmentally important genes.

resultsChromatin-immunoprecipitation (ChIP) assays were performed to immuno-precipitate chromatin by antibodies against both active (H3K4me3) and repressive (H3K9me3) chromatin regions. The analysis of ChIP results showed that both the percentage input and fold enrichment of activated chromatin was higher in tissues expressing the respective genes as compared to the tissues not expressing the same set of genes. This was true for all the genes selected for the study (c-mos, HoxB5, Sox11, and Sry). These findings illustrate that inconsistent DNA methylation patterns (sporadic, mosaic and heterogeneous) may also influence gene regulation, thereby resulting in the modulation of chromatin conformation.

conclusionsThese findings illustrate that various patterns of DNA methylation (asynchronous, mosaic and heterogeneous) correlates with chromatin modification, resulting in the gene regulation.

Indexed as

DNA MethylationEpigenesis, GeneticGene Expression Regulation, DevelopmentalAnimalsChromatinChromatin Assembly and DisassemblyChromatin ImmunoprecipitationGenes, mosHomeodomain ProteinsMiceSex-Determining Region Y ProteinSOXC Transcription FactorsChromatinHomeodomain ProteinsHoxb5 protein, mouseSex-Determining Region Y ProteinSox11 protein, mouseSOXC Transcription FactorsSry protein, mouseChromatin conformationChromatin-immunoprecipitation (ChIP)C-mosDNA methylationHoxB5Sox11Tissue-specific gene expression

Identifiers

PMID28081716
PMCPMC5234095
OpenAlexW2573412700

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Registered trials

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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.