Evidence map›Paper›PMID 25147584›Full record

ArticleClinical epigenetics2014

High-throughput DNA analysis shows the importance of methylation in the control of immune inflammatory gene transcription in chronic periodontitis.

Ana Paula De Souza, Aline Cristiane Planello, Marcelo Rocha Marques, Daniel Diniz De Carvalho, Sergio Roberto Peres Line

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

Article in Clinical epigenetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
20citing papers in PubMed, 2 pooled it
0.9field-weighted citation impact, top 27% 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

20 citing papers in PubMed, 2 syntheses or guidelines pooled it, 38 citations in OpenAlex.

  1. Pooled it
  2. Epigenetics and periodontics: A systematic review.Medicina oral, patologia oral y cirugia bucal · 2019
    Pooled it
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  7. Dental Stem Cells and Lipopolysaccharides: A Concise Review.International journal of molecular sciences · 2024
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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

5 authors at 3 institutions in 3 countries.

Ana Paula De SouzaDepartment of Morphology, School of Dentistry of Piracicaba, FOP-UNICAMP, University of Campinas, Av. Limeira 901, Piracicaba, SP 13414-018, Brazil.
Aline Cristiane PlanelloDepartment of Morphology, School of Dentistry of Piracicaba, FOP-UNICAMP, University of Campinas, Av. Limeira 901, Piracicaba, SP 13414-018, Brazil ; Ontario Cancer Institute, Princess Margaret Hospital, University Health Network, Toronto, ON M5G 2M9, Canada.
Marcelo Rocha MarquesDepartment of Morphology, School of Dentistry of Piracicaba, FOP-UNICAMP, University of Campinas, Av. Limeira 901, Piracicaba, SP 13414-018, Brazil.
Daniel Diniz De CarvalhoOntario Cancer Institute, Princess Margaret Hospital, University Health Network, Toronto, ON M5G 2M9, Canada.
Sergio Roberto Peres LineDepartment of Morphology, School of Dentistry of Piracicaba, FOP-UNICAMP, University of Campinas, Av. Limeira 901, Piracicaba, SP 13414-018, Brazil.
Universidade Estadual de Campinas (UNICAMP) · BRHealth Net · USPrincess Margaret Cancer Centre · CA

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundChronic periodontitis represents a complex disease that is hard to control and is not completely understood. Evidence from past studies suggests that there is a key role for DNA methylation in the pathogenesis of periodontitis. However, all reports have applied technologies that investigate genes in a low throughput. In order to advance in the knowledge of the disease, we analyzed DNA methylation variations associated with gene transcription using a high-throughput assay. Infinium® HumanMethylation450 (Illumina) was performed on gingival samples from 12 periodontitis cases and 11 age-matched healthy individuals. Methylation data of 1,284 immune-related genes and 1,038 cell cycle-related genes from Gene Ontology (GO) and 575 genes from a dataset of stably expressed genes (genes with consistent expression in different physiological states and tissues) were extracted from a microarray dataset and analyzed using bioinformatics tools. DNA methylation variations ranging from -2,000 to +2,000 bp from the transcription start site (TSS) were analyzed, and the results were tested against a differential expression microarray dataset between healthy and periodontitis gingival tissues. Differences were evaluated using tests from the R Statistical Project.

resultsThe comparison of probes between periodontitis and normal gingival tissues showed that the mean methylation scores and the frequency of methylated probes were significantly lower in genes related to the immune process. In the immune group, these parameters were negatively correlated with gene expression (Mann-Whitney test, p < 2.2e - 16).

conclusionsOur results show that variations in DNA methylation between healthy and periodontitis cases are higher in genes related to the immune-inflammatory process. Thus, DNA methylation must be modulating chromatin regions and, consequently, modulating the mRNA transcription of immune-inflammatory genes related with periodontitis, impacting the prognosis of disease.

Indexed as

Chronic periodontitisDNA methylationEpigeneticsInflammationTranscription

Identifiers

PMID25147584
PMCPMC4140141
OpenAlexW2096167978

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.