Evidence map›Paper›PMID 24961364›Full record

ArticleThe American journal on addictions

Common PTP4A1-PHF3-EYS variants are specific for alcohol dependence.

Lingjun Zuo, Kesheng Wang, Guilin Wang, Xinghua Pan, Xiangyang Zhang, Heping Zhang, Xingguang Luo

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

Article in The American journal on addictions. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed, 2 pooled it
0.6field-weighted citation impact, top 31% 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

7 citing papers in PubMed, 2 syntheses or guidelines pooled it, 9 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

7 authors at 4 institutions in 1 country.

Lingjun ZuoDepartment of Psychiatry, Yale University School of Medicine, New Haven, Connecticut.
Kesheng Wang
Guilin Wang
Xinghua Pan
Xiangyang Zhang
Heping Zhang
Xingguang Luo
Yale University · USBaylor College of Medicine · USEast Tennessee State University · USYale New Haven Health System · US

Funding

Subject CollectionU10AA008401 · NIAAA · SUNY DOWNSTATE MEDICAL CENTER · PI JESSICA E SALVATORE · 1989 to 2026
$162.7M
Yale University Clinical and Translational Science Award ProgramUL1TR000142 · NCATS · YALE UNIVERSITY · PI SHERWIN, ROBERT S · 2012 to 2015
$31.8M
JH/CIDR Genotyping for Genome-Wide Association StudiesU01HG004438 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI VALLE, DAVID · 2007 to 2011
$24.2M
The Collaborative Genetic Study of Nicotine DependenceP01CA089392 · NCI · WASHINGTON UNIVERSITY · PI RICE, JOHN P · 2001 to 2012
$17.3M
The Heritable Transcriptome and AlcoholismR24AA013162 · NIAAA · UNIVERSITY OF COLORADO DENVER · PI HOFFMAN, PAULA, SABA, LAURA MAREN · 2001 to 2021
$14.2M
PILOT--GENETIC EPIDEMIOLOGY OF ALCOHOL AND TOBACCO CONSUMPTION IN CHINESE SAMPLEP50AA011998 · NIAAA · WASHINGTON UNIVERSITY · PI SHER, KENNETH JAMES · 1999 to 2008
$12.6M
Resource CoreP60AA011998 · NIAAA · WASHINGTON UNIVERSITY · PI MADDEN, PAMELA ANN · 2009 to 2013
$8.8M
MOLECULAR GENETICS OF SCHIZOPHRENIAR01MH059571 · NIMH · UNIVERSITY OF CHICAGO · PI GEJMAN, PABLO V. · 1999 to 2007
$8.0M
International Multi-Center ADHD Genetics ProjectR01MH062873 · NIMH · UPSTATE MEDICAL UNIVERSITY · PI FARAONE, STEPHEN V · 2002 to 2007
$7.2M
Genome Wide Association Coordinating CenterU01HG004446 · NHGRI · UNIVERSITY OF WASHINGTON · PI WEIR, BRUCE S. · 2007 to 2011
$6.6M
A Genome-Wide Association Study of SchizophreniaU01MH079469 · NIMH · NORTHSHORE UNIVERSITY HEALTHSYSTEM · PI GEJMAN, PABLO V. · 2007 to 2009
$4.4M
Statistical Methods in Genetic Studies of Substance UseR01DA016750 · NIDA · YALE UNIVERSITY · PI ZHANG, HEPING · 2004 to 2016
$3.3M
Medical Research Council G0601030NCATS NIH HHS UL1 TR000142NCI NIH HHS P01 CA089392NCRR NIH HHS M01RR165001NHGRI NIH HHS U01 HG004422NHGRI NIH HHS U01HG004422NHGRI NIH HHS U01 HG004436NHGRI NIH HHS U01HG004436NHGRI NIH HHS U01 HG004438NHGRI NIH HHS U01HG004438NHGRI NIH HHS U01 HG004446NHGRI NIH HHS U01HG004446NIAAA NIH HHS P50 AA011998NIAAA NIH HHS P60AA011998NIAAA NIH HHS R01 AA013320NIAAA NIH HHS R01AA013320NIAAA NIH HHS R01 AA016015NIAAA NIH HHS R21 AA020319NIAAA NIH HHS R21 AA021380NIAAA NIH HHS R24 AA013162NIAAA NIH HHS U10 AA008401NIAAA NIH HHS U10AA008401NIDA NIH HHS K01 DA029643NIDA NIH HHS R01 DA013423NIDA NIH HHS R01DA013423NIDA NIH HHS R01 DA016750NIDA NIH HHS R01DA016750NIMH NIH HHS K01 MH086621NIMH NIH HHS K01MH086621NIMH NIH HHS R01MH059160NIMH NIH HHS R01 MH059565NIMH NIH HHS R01 MH059566NIMH NIH HHS R01 MH059571NIMH NIH HHS R01 MH059586NIMH NIH HHS R01 MH059587NIMH NIH HHS R01 MH059588NIMH NIH HHS R01 MH060870NIMH NIH HHS R01 MH060879NIMH NIH HHS R01 MH061675NIMH NIH HHS R01 MH062873NIMH NIH HHS R01 MH067257NIMH NIH HHS R01 MH081803NIMH NIH HHS R01MH081803NIMH NIH HHS R01MH59565NIMH NIH HHS R01MH59566NIMH NIH HHS R01MH59571NIMH NIH HHS R01MH59586NIMH NIH HHS R01MH59587NIMH NIH HHS R01MH59588NIMH NIH HHS R01MH60870NIMH NIH HHS R01MH60879NIMH NIH HHS R01MH61675NIMH NIH HHS R01MH62873NIMH NIH HHS R01MH67257NIMH NIH HHS R01MH81800NIMH NIH HHS U01 MH046276NIMH NIH HHS U01 MH046289NIMH NIH HHS U01 MH046318NIMH NIH HHS U01 MH079469NIMH NIH HHS U01 MH079470NIMH NIH HHS U01MH46282NIMH NIH HHS U01MH46318NIMH NIH HHS U01MH79469NIMH NIH HHS U01MH79470NINDS NIH HHS R01 NS045012NINDS NIH HHS R01NS45012Wellcome TrustWellcome Trust 075491/Z/04
6 · The paper itself

Abstract

BACKGROUND AND

objectivesWe previously reported a risk genomic region (ie, PTP4A1-PHF3-EYS) for alcohol dependence in a genome-wide association study (GWAS). We also reported a rare variant constellation across this region that was significantly associated with alcohol dependence. In the present study, we significantly increased the marker density within this region and examined the specificity of the associations of common variants for alcohol dependence.

methodsOne African-American discovery sample (681 cases with alcohol dependence and 508 controls), one European-American replication sample (1,409 alcohol dependent cases and 1,518 controls), and one European-Australian replication sample (a total of 6,438 family subjects with 1,645 alcohol dependent probands) underwent association analysis. A total of 38,714 subjects from 18 other cohorts with 10 different neuropsychiatric disorders served as contrast groups.

resultsWe found 289 SNPs that were nominally associated with alcohol dependence in the discovery sample (p < .05). Fifty-six associations of them were significant after correction (1.9 × 10(-6) ≤ p ≤ 1.6 × 10(-5)). No markers were significantly associated with other neuropsychiatric disorders after experiment-wide correction. CONCLUSIONS AND SCIENTIFIC SIGNIFICANCE: We confirmed with our previous findings that PTP4A1-PHF3-EYS variants were significantly associated with alcohol dependence, which were replicable across multiple independent populations and were specific for alcohol dependence. These findings suggested that this region might harbor a causal variant(s) for alcohol dependence.

Indexed as

AlcoholismBlack or African AmericanCase-Control StudiesCell Cycle ProteinsEye ProteinsGenetic Association StudiesGenetic Predisposition to DiseaseHumansMembrane ProteinsPolymorphism, Single NucleotideProtein Tyrosine PhosphatasesTranscription FactorsWhite PeopleCell Cycle ProteinsEye ProteinsEYS protein, humanMembrane ProteinsPHF3 protein, humanProtein Tyrosine PhosphatasesPTP4A1 protein, humanTranscription Factors

Identifiers

PMID24961364
PMCPMC4111256
OpenAlexW1533695926

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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.