Evidence map›Paper›PMID 25243493›Full record

ArticleBipolar disorders2014

Correlation between DNA methylation and gene expression in the brains of patients with bipolar disorder and schizophrenia.

Chao Chen, Chunling Zhang, Lijun Cheng, James L Reilly, Jeffrey R Bishop, John A Sweeney, Hua-Yun Chen, Elliot S Gershon, Chunyu Liu

Open access · greenAbstract read
In one paragraph

Article in Bipolar disorders, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers, 3 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
57citing papers in PubMed, 3 pooled it
4.6field-weighted citation impact, top 4% 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

57 citing papers in PubMed, 3 syntheses or guidelines pooled it, 110 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Pooled it
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  16. Epigenome-wide association study of alcohol use disorder in five brain regions.Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology · 2022
    Article
  17. Article
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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

9 authors at 5 institutions in 2 countries.

Chao ChenThe State Key Laboratory of Medical Genetics, Central South University, Changsha, Hunan, China.
Chunling Zhang
Lijun Cheng
James L Reilly
Jeffrey R Bishop
John A Sweeney
Hua-Yun Chen
Elliot S Gershon
Chunyu Liu
University of Illinois Chicago · USNorthwestern University · USUniversity of Chicago · USCentral South University · CNThe University of Texas Southwestern Medical Center · US

Funding

Modeling the temporal succession of phenotypes & environnnental cuesP50MH094267 · NIMH · UNIVERSITY OF CHICAGO · PI RZHETSKY, ANDREY · 2011 to 2015
$10.2M
Genetic variants affect brain gene expression and risks of psychiatric disordersU01MH103340 · NIMH · UPSTATE MEDICAL UNIVERSITY · PI LIU, CHUNYU, RZHETSKY, ANDREY · 2014 to 2017
$4.3M
The Bipolar Genome StudyR01MH094483 · NIMH · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI CRAIG, DAVID W, EDENBERG, HOWARD J · 2012 to 2014
$2.2M
Integrating epigenomic maps to predict regulatory functions of genetic variantsR01ES024988 · NIEHS · UNIVERSITY OF ILLINOIS AT CHICAGO · PI LIU, CHUNYU · 2014 to 2015
$625k
Somatic Mutations in Brain in Alzheimer's DiseaseR21AG045789 · NIA · UNIVERSITY OF CHICAGO · PI FAULKNER, GEOFFREY JOHN, GERSHON, ELLIOT S · 2014 to 2015
$487k
NIA NIH HHS R21 AG045789NIEHS NIH HHS R01 ES024988NIMH NIH HHS P50 MH094267NIMH NIH HHS P50MH94267NIMH NIH HHS R01 MH094483NIMH NIH HHS R01MH094483NIMH NIH HHS U01 MH103340
6 · The paper itself

Abstract

objectivesAberrant DNA methylation and gene expression have been reported in postmortem brain tissues of psychotic patients, but until now there has been no systematic evaluation of synergistic changes in methylation and expression on a genome-wide scale in brain tissue.

methodsIn this study, genome-wide methylation and expression analyses were performed on cerebellum samples from 39 patients with schizophrenia, 36 patients with bipolar disorder, and 43 unaffected controls, to screen for a correlation between gene expression and CpG methylation.

resultsOut of 71,753 CpG gene pairs (CGPs) tested across the genome, 204 were found to significantly correlate with gene expression after correction for multiple testing [p < 0.05, false discovery rate (FDR) q < 0.05]. The correlated CGPs were tested for disease-associated expression and methylation by comparing psychotic patients with bipolar disorder and schizophrenia to healthy controls. Four of the identified CGPs were found to significantly correlate with the differential expression and methylation of genes encoding phosphoinositide-3-kinase, regulatory subunit 1 (PIK3R1), butyrophilin, subfamily 3, member A3 (BTN3A3), nescient helix-loop-helix 1 (NHLH1), and solute carrier family 16, member 7 (SLC16A7) in psychotic patients (p < 0.05, FDR q < 0.2). Additional expression and methylation datasets were used to validate the relationship between DNA methylation, gene expression, and neuropsychiatric diseases.

conclusionsThese results suggest that the identified differentially expressed genes with an aberrant methylation pattern may represent novel candidate factors in the etiology and pathology of neuropsychiatric disorders.

Indexed as

Bipolar DisorderSchizophreniaStatistics as TopicAntigens, CDBasic Helix-Loop-Helix ProteinsButyrophilinsCerebellumClass Ia Phosphatidylinositol 3-KinaseCpG IslandsDNA MethylationFemaleGene ExpressionGene Expression ProfilingHumansMaleMembrane GlycoproteinsAntigens, CDBasic Helix-Loop-Helix ProteinsBTN3A1 protein, humanBTNL9 protein, humanButyrophilinsClass Ia Phosphatidylinositol 3-KinaseMembrane GlycoproteinsMonocarboxylic Acid TransportersNHLH1 protein, humanPhosphatidylinositol 3-KinasesPIK3R1 protein, humanSLC16A7 protein, humanbipolar disorderbutyrophilin, subfamily 3, member A3 (BTN3A3)CpG gene pairs (CGPs)DNA methylationgene expressionnescient helix-loop-helix 1 (NHLH1)phosphoinositide-3-kinase, regulatory subunit 1 (PIK3R1)schizophreniasolute carrier family 16, member 7 (SLC16A7)

Identifiers

PMID25243493
PMCPMC4302408
OpenAlexW2116438197

What OpenQuestion holds

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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.