Meta-analysis of 15 genome-wide linkage scans of smoking behavior.

paper Cited Public

Authors: Han, Shizhong; Gelernter, Joel; Luo, Xingguang; Yang, Bao-Zhu
Year: 2010
Journal: Biological psychiatry
PMID: 19819424
DOI: 10.1016/j.biopsych.2009.08.028
PMCID: PMC2975396

#	Section	Preview
20	Discussion	and sample ancestry. For example, a genomewide significant linkage in bin 20.3 (20q13.12–q13.32)…
21	Discussion	A necessary follow-up step is to evaluate if notable candidate genes map to regions nominated by the…
22	Discussion	system (38). It is possible that variants of these PH-domain-containing proteins have an impact on…
23	Discussion	Recent genomewide association studies (GWAS) have identified many more genes implicated in smoking…
24	Discussion	Several GWAS have consistently identified a region on chromosome 15q24 associated with smoking…
25	Discussion	find any stronger evidence for linkage in this region might imply that the genetic effect is small…
26	Discussion	We discuss briefly additional novel candidate genes mapped to regions discovered by the GSMA. In…
27	Discussion	One advantage of GSMA is to confirm consistent evidence for linkage across studies. We compared the…
28	Discussion	take into account directly whether the linkage signals aggregated have reached genomewide, or…
29	Discussion	Although GWAS has greater power to detect small effects on phenotype of common variants and copy…

Citation	PMID	DOI	Status
Amos, CI et al., Nat Genet, 2008, Genome-wide association scan of tag SNPs identifies a susceptibility locus for lung cancer at 15q25.1	18385676	10.1038/ng.109	Cited
Bergen, AW et al., Genet Epidemiol, 1999, A genome-wide search for loci contributing to smoking and alcoholism	10597412	10.1002/gepi.1370170710	Cited
Berrettini, W et al., Mol Psychiatry, 2008, Alpha-5/alpha-3 nicotinic receptor subunit alleles increase risk for heavy smoking	18227835	10.1038/sj.mp.4002154	Cited
Beuten, J et al., Neuropsychopharmacology, 2006, Significant association of catechol-O-methyltransferase (COMT) haplotypes with nicotine dependence in male and female smokers of two ethnic populations	16395295	10.1038/sj.npp.1300997	Cited
Bierut, LJ et al., Am J Med Genet A, 2004, A genomic scan for habitual smoking in families of alcoholics: common and specific genetic factors in substance dependence	14679582	10.1002/ajmg.a.20329	Primary
Bierut, LJ et al., Hum Mol Genet, 2007, Novel genes identified in a high-density genome wide association study for nicotine dependence	17158188	10.1093/hmg/ddl441	Cited
Breitling, LP et al., Pharmacogenomics J, 2009, Association of nicotinic acetylcholine receptor subunit alpha4 polymorphisms with nicotine dependence in 5500 Germans	19290018	10.1038/tpj.2009.6	Cited
Caporaso, N et al., PLoS ONE, 2009, Genome-wide and candidate gene association study of cigarette smoking behaviors	19247474	10.1371/journal.pone.0004653	Cited
Duggirala, R et al., Genet Epidemiol, 1999, Smoking behavior is under the influence of a major quantitative trait locus on human chromosome 5q	10597426	10.1002/gepi.1370170724	Cited
Ehlers, CL et al., BMC Med Genet, 2006, Genomic screen for loci associated with tobacco usage in Mission Indians	16472381	10.1186/1471-2350-7-9	Cited
Fagerstrom, KO, Addict Behav, 1978, Measuring degree of physical dependence to tobacco smoking with reference to individualization of treatment	735910	10.1016/0306-4603(78)90024-2	Cited
Feng, Y et al., Am J Hum Genet, 2004, A common haplotype of the nicotine acetylcholine receptor a4 subunit gene is associated with vulnerability to nicotine addiction in men	15154117	10.1086/422194	Cited
Forabosco, P et al., Genes Immun, 2006, Meta-analysis of genome-wide linkage studies of systemic lupus erythematosus	16971955	10.1038/sj.gene.6364338	Cited
Freathy, RM et al., Hum Mol Genet, 2009, A common genetic variant in the 15q24 nicotinic acetylcholine receptor gene cluster (CHRNA5-CHRNA3-CHRNB4) is associated with a reduced ability of women to quit smoking in pregnancy	19429911	10.1093/hmg/ddp216	Cited
Gelernter, J et al., Am J Med Genet B Neuropsychiatr Genet, 2004, Results of a genomewide linkage scan: support for chromosomes 9 and 11 loci increasing risk for cigarette smoking	15211640	10.1002/ajmg.b.30019	Cited
Gelernter, J et al., Biol Psychiatry, 2007, Genomewide linkage scan for nicotine dependence: identification of a chromosome 5 risk locus	17081504	10.1016/j.biopsych.2006.08.023	Cited
Gelernter, J et al., Hum Mol Genet, 2006, Haplotype spanning TTC12 and ANKK1, Xanked by the DRD2 and NCAM1 loci, is strongly associated to nicotine dependence in two distinct American populations	17085484	10.1093/hmg/ddl426	Cited
Goode, EL et al., BMC Genet, 2003, Multiple genome-wide analyses of smoking behavior in the Framingham Heart Study	14975170	10.1186/1471-2156-4-S1-S102	Cited
Harlan, JE et al., Nature, 1994, Pleckstrin homology domains bind to phosphatidylinositol-4,5-bisphosphate	8072546	10.1038/371168a0	Cited
Heatherton, TF et al., Br J Addict, 1991, The Fagerstrom Test for Nicotine Dependence: A revision of the Fagerstrom Tolerance Questionnaire	1932883	10.1111/j.1360-0443.1991.tb01879.x	Cited
Hermanowski, J et al., Eur J Hum Genet, 2007, Meta-analysis of genome-wide linkage studies for multiple sclerosis, using an extended GSMA method	17377519	10.1038/sj.ejhg.5201818	Cited
Hung, RJ et al., Nature, 2008, A susceptibility locus for lung cancer maps to nicotinic acetylcholine receptor subunit genes on 15q25	18385738	10.1038/nature06885	Cited
Hutchison, KE et al., Arch Gen Psychiatry, 2007, CHRNA4 and tobacco dependence: from gene regulation to treatment outcome	17768273	10.1001/archpsyc.64.9.1078	Cited
Lessov-Schlaggar, CN et al., Biochem Pharmacol, 2008, Genetics of nicotine dependence and pharmacotherapy	17888884	10.1016/j.bcp.2007.08.018	Cited
Levinson, DF et al., Am J Hum Genet, 2003, Genome scan meta-analysis of schizophrenia and bipolar disorder, part I: Methods and power analysis	12802787	10.1086/376548	Cited
Li, MD et al., Am J Hum Genet, 2006, A genomewide search finds major susceptibility loci for nicotine dependence on chromosome 10 in African Americans	16960812	10.1086/508208	Cited
Li, MD et al., BMC Genet, 2003, A genome-wide scan to identify loci for smoking rate in the Framingham Heart Study population	14975171	10.1186/1471-2156-4-S1-S103	Cited
Li, MD et al., Hum Mol Genet, 2005, Ethnic- and gender-specific association of the nicotinic acetylcholine receptor α4 subunit gene (CHRNA4) with nicotine dependence	15790597	10.1093/hmg/ddi132	Cited
Li, MD et al., Mol Psychiatry, 2008, Genome-wide linkage scan for nicotine dependence in European Americans and its converging results with African Americans in the Mid-South Tobacco Family sample	17579606	10.1038/sj.mp.4002038	Cited
Li, MD, Hum Genet, 2008, Identifying susceptibility loci for nicotine dependence: 2008 update based on recent genome-wide linkage analyses	18205015	10.1007/s00439-008-0473-0	Cited
Liu, YZ et al., Mol Psychiatry, 2009, Genome-wide association analyses suggested a novel mechanism for smoking behavior regulated by IL15	19188921	10.1038/mp.2009.3	Cited
Loukola, A et al., Pharmacogenomics J, 2008, Linkage of nicotine dependence and smoking behavior on 10q, 7q and 11p in twins with homogeneous genetic background	17549066	10.1038/sj.tpj.6500464	Cited
Luo, X et al., Am J Med Genet (Neuropsych Genet), 2003, Haplotypes at the OPRM1 locus are associated with susceptibility to substance dependence in European Americans	12815747	10.1002/ajmg.b.20034	Cited
Ma, JZ et al., Hum Mol Genet, 2005, Haplotype analysis indicates an association between the DOPA decarboxylase (DDC) gene and nicotine dependence	15879433	10.1093/hmg/ddi177	Cited
Morley, KI et al., Behav Genet, 2006, A possible smoking susceptibility locus on chromosome 11p12: evidence from sex-limitation linkage analyses in a sample of Australian twin families	16365831	10.1007/s10519-005-9004-0	Cited
Pardi, F et al., Bioinformatics, 2005, GSMA: software implementation of the genome search meta-analysis method	16249265	10.1093/bioinformatics/bti725	Cited
Pomerleau, OF et al., Nicotine Tob Res, 2007, Genome-wide linkage analysis for smoking-related regions, with replication in two ethnically diverse populations	17763112	10.1080/14622200701541216	Cited
Saccone, NL et al., Am J Med Genet B Neuropsychiatr Genet, 2009, Multiple distinct risk loci for nicotine dependence identified by dense coverage of the complete family of nicotinic receptor subunit (CHRN) genes	19259974	10.1002/ajmg.b.30828	Cited
Saccone, NL et al., BMC Genet, 2003, Genetic analysis of maximum cigarette-use phenotypes	14975173	10.1186/1471-2156-4-S1-S105	Cited
Saccone, SF et al., Am J Hum Genet, 2007, Genetic linkage to chromosome 22q12 for a heavy-smoking quantitative trait in two independent samples	17436240	10.1086/513703	Cited
Saccone, SF et al., Hum Mol Genet, 2007, Cholinergic nicotinic receptor genes implicated in a nicotine dependence association study targeting 348 candidate genes with 3713 SNPs	17135278	10.1093/hmg/ddl438	Cited
Schinka, JA et al., Mol Psychiatry, 2002, A functional polymorphism within the mu-opioid receptor gene and risk for abuse of alcohol and other substances	11840318	10.1038/sj.mp.4000951	Cited
Shields, PG et al., Cancer Epidemiol Biomarkers Prev, 1998, Dopamine D4 receptors and the risk of cigarette smoking in African-Americans and Caucasians	9641486	—	Cited
Stefansson, H et al., Nature, 2008, Large recurrent microdeletions associated with schizophrenia	18668039	10.1038/nature07229	Cited
Stevens, VL et al., Cancer Epidemiol Biomarkers Prev, 2008, Nicotinic receptor gene variants influence susceptibility to heavy smoking	19029397	10.1158/1055-9965.EPI-08-0585	Cited
Straub, RE et al., Mol Psychiatry, 1999, Susceptibility genes for nicotine dependence: a genome scan and follow up in an independent sample suggest that regions on chromosomes 2, 4, 10, 16, 17 and 18 merit further study	10208445	10.1038/sj.mp.4000518	Cited
Swan, GE et al., Am J Med Genet B Neuropsychiatr Genet, 2006, A genome-wide screen for nicotine dependence susceptibility loci	16671072	10.1002/ajmg.b.30315	Cited
Tapper, AR et al., Science, 2004, Nicotine activation of α4 receptors: sufficient for reward, tolerance, and sensitization	15528443	10.1126/science.1099420	Cited
Thorgeirsson, TE et al., Nature, 2008, A variant associated with nicotine dependence, lung cancer and peripheral arterial disease	18385739	10.1038/nature06846	Cited
Vandenbergh, DJ et al., Addict Biol, 2007, Dopamine receptor genes (DRD2, DRD3 and DRD4) and gene-gene interactions associated with smoking-related behaviors	17407504	10.1111/j.1369-1600.2007.00054.x	Cited
Vink, JM et al., Behav Genet, 2006, Genome-wide linkage scan to identify Loci for age at first cigarette in Dutch sibling pairs	16374522	10.1007/s10519-005-9012-0	Cited
Vink, JM et al., Pharmacogenomics J, 2004, Linkage analysis of smoking initiation and quantity in Dutch sibling pairs	15170444	10.1038/sj.tpj.6500255	Cited
Walsh, T et al., Science, 2008, Rare structural variants disrupt multiple genes in neurodevelopmental pathways in schizophrenia	18369103	10.1126/science.1155174	Cited
Wang, D et al., Pharmacogenomics J, 2005, Mapping and verification of susceptibility loci for smoking quantity using permutation linkage analysis	15724146	10.1038/sj.tpj.6500304	Cited
Weiss, RB et al., PLoS Genet, 2008, A candidate gene approach identifies the CHRNA5-A3-B4 region as a risk factor for age-dependent nicotine addiction	18618000	10.1371/journal.pgen.1000125	Cited
Wise, LH et al., Ann Hum Genet, 1999, Meta-analysis of genome searches	10738538	10.1046/j.1469-1809.1999.6330263.x	Cited
Yang, BZ et al., Hum Mol Genet, 2007, Association of Haplotypic Variants in DRD2, ANKK1, TTC12 and NCAM1 to Alcohol Dependence in Independent Case-control and Family Samples	17761687	10.1093/hmg/ddm240	Cited
Yu, Y et al., Hum Genet, 2008, Substance dependence low-density whole genome association study in two distinct American populations	18438686	10.1007/s00439-008-0501-0	Cited
Yu, Y et al., Hum Mol Genet, 2006, Intronic variants in the dopa decarboxylase (DDC) gene are associated with smoking behavior in European-Americans and African-Americans	16740595	10.1093/hmg/ddl144	Cited
Zhang, H et al., Human Molecular Genetics, 2006, Association between two μ opioid receptor gene (OPRM1) haplotype blocks and drug or alcohol dependence	16476706	10.1093/hmg/ddl024	Cited
Zhang, L et al., Behav Brain Funct, 2006, The mu-opioid receptor gene and smoking initiation and nicotine dependence	16887046	10.1186/1744-9081-2-28	Cited

In this knowledge base

Title	Year	PMID
A regulatory variant of CHRM3 is associated with cannabis-induced hallucinations in European Americans.	2019	31740666
Converging findings from linkage and association analyses on susceptibility genes for smoking and other addictions.	2016	27166759
Smokescreen: a targeted genotyping array for addiction research.	2016	26921259
Autosomal linkage scan for loci predisposing to comorbid dependence on multiple substances.	2012	22354695
Pharmacogenetics of smoking cessation: role of nicotine target and metabolism genes.	2012	22290489
Association of CHRNA4 polymorphisms with smoking behavior in two populations.	2011	21445957
Genome-wide association study of smoking behaviours in patients with COPD.	2011	21685187
Rare nonsynonymous variants in alpha-4 nicotinic acetylcholine receptor gene protect against nicotine dependence.	2011	21683344

External

Title	Authors	Journal	Year	Link
A mode of action protein based approach that characterizes the relationships among most major diseases.	Zhou H et al.	—	2025	→
Combining neuroimaging and brain stimulation to test alternative causal pathways for nicotine addiction in schizophrenia.	Du X et al.	—	2024	→
Prediction of Smoking Behavior From Single Nucleotide Polymorphisms With Machine Learning Approaches.	Xu Y et al.	—	2020	→
Prospects for finding the mechanisms of sex differences in addiction with human and model organism genetic analysis.	Datta U et al.	—	2020	→
An Exome-Wide Association Study Identifies New Susceptibility Loci for Age of Smoking Initiation in African- and European-American Populations.	Jiang K et al.	—	2019	→
A regulatory variant of CHRM3 is associated with cannabis-induced hallucinations in European Americans.	Cheng Z et al.	—	2019	→
Genome-wide association study in Finnish twins highlights the connection between nicotine addiction and neurotrophin signaling pathway.	Hällfors J et al.	—	2019	→
A Novel Tobacco Use Phenotype Suggests the 15q25 and 19q13 Loci May be Differentially Associated With Cigarettes per Day and Tobacco-Related Problems.	Richmond-Rakerd LS et al.	—	2017	→
GRONS: a comprehensive genetic resource of nicotine and smoking.	Fang Z et al.	—	2017	→
The effect of prenatal smoking exposure on daily smoking among teenage offspring.	Niemelä S et al.	—	2017	→
CHRNA4 was associated with prepulse inhibition of schizophrenia in Chinese: a pilot study.	Shi J et al.	—	2016	→
Converging findings from linkage and association analyses on susceptibility genes for smoking and other addictions.	Yang J et al.	—	2016	→
Gene by Environment Investigation of Incident Lung Cancer Risk in African-Americans.	David SP et al.	—	2016	→
Genome-wide significant loci for addiction and anxiety.	Hodgson K et al.	—	2016	→
Smokescreen: a targeted genotyping array for addiction research.	Baurley JW et al.	—	2016	→
Association of CYP2A6 gene polymorphisms with cigarette consumption: a meta-analysis.	Pan L et al.	—	2015	→
Genome-wide meta-analysis reveals common splice site acceptor variant in CHRNA4 associated with nicotine dependence.	Hancock DB et al.	—	2015	→
Prioritizing Genes Related to Nicotine Addiction Via a Multi-source-Based Approach.	Liu X et al.	—	2015	→
Role of the Neuregulin Signaling Pathway in Nicotine Dependence and Co-morbid Disorders.	Fisher ML et al.	—	2015	→
Genetic Association of CHRNB3 and CHRNA6 Gene Polymorphisms with Nicotine Dependence Syndrome Scale in Korean Population.	Won WY et al.	—	2014	→
Genetics and smoking.	Loukola A et al.	—	2014	→
Genetic variants and early cigarette smoking and nicotine dependence phenotypes in adolescents.	O'Loughlin J et al.	—	2014	→
Genome-wide association study on detailed profiles of smoking behavior and nicotine dependence in a twin sample.	Loukola A et al.	—	2014	→
Organic cation transporter variation and response to smoking cessation therapies.	Bergen AW et al.	—	2014	→
Protection genes in nucleus accumbens shell affect vulnerability to nicotine self-administration across isogenic strains of adolescent rat.	Chen H et al.	—	2014	→
Rare human nicotinic acetylcholine receptor α4 subunit (CHRNA4) variants affect expression and function of high-affinity nicotinic acetylcholine receptors.	McClure-Begley TD et al.	—	2014	→
Nicotinic acetylcholine receptor subunits α4 and α5 associated with smoking behaviour and lung cancer are regulated by upstream open reading frames.	Eggert M et al.	—	2013	→
Analysis of detailed phenotype profiles reveals CHRNA5-CHRNA3-CHRNB4 gene cluster association with several nicotine dependence traits.	Broms U et al.	—	2012	→
Autosomal linkage scan for loci predisposing to comorbid dependence on multiple substances.	Yang BZ et al.	—	2012	→
Chromosome 20 shows linkage with DSM-IV nicotine dependence in Finnish adult smokers.	Keskitalo-Vuokko K et al.	—	2012	→
Genetics of GABAergic signaling in nicotine and alcohol dependence.	Cui WY et al.	—	2012	→
Gustatory, trigeminal, and olfactory aspects of nicotine intake in three mouse strains.	Gyekis JP et al.	—	2012	→
Pharmacogenetics of smoking cessation: role of nicotine target and metabolism genes.	Gold AB et al.	—	2012	→
The genetics of addiction-a translational perspective.	Agrawal A et al.	—	2012	→
Association of CHRNA4 polymorphisms with smoking behavior in two populations.	Han S et al.	—	2011	→
Associations of CYP2A6 genotype with smoking behaviors in southern China.	Liu T et al.	—	2011	→
Genome-wide association study of smoking behaviours in patients with COPD.	Siedlinski M et al.	—	2011	→
Rare nonsynonymous variants in alpha-4 nicotinic acetylcholine receptor gene protect against nicotine dependence.	Xie P et al.	—	2011	→
Genetics of drug dependence.	Gelernter J et al.	—	2010	→
Genetics of human social behavior.	Ebstein RP et al.	—	2010	→