Dissecting ancestry genomic background in substance dependence genome-wide association studies

Pharmacogenomics
Renato PolimantiJoel Gelernter

Abstract

To understand the role of ancestral genomic background in substance dependence (SD) genome-wide association studies (GWAS), we analyzed population diversity at genetic loci associated with SD traits and evaluated its effect on GWAS outcomes. We investigated 24 genes with variants associated with SD by GWAS; and 82 loci with putative subordinate roles with respect to SD-associated genes. We observed high ancestry-related frequency differences in common functional alleles in GWAS relevant genes and their interactive partners. Common functional alleles with high frequency differences demonstrated significant effects on the GWAS outcomes. Population differences in SD GWAS outcomes seem not to be influenced by general variation across the genome, but by ancestry-related local haplotype structures at SD-associated loci.

References

Dec 11, 1999·Nucleic Acids Research·M Kanehisa, S Goto
May 25, 2002·Science·Stacey B GabrielDavid Altshuler
Jul 5, 2005·Nature Reviews. Genetics·David GoldmanFrancesca Ducci
Feb 24, 2006·PLoS Biology·Benjamin F VoightJonathan K Pritchard
Jul 3, 2008·Annual Review of Genomics and Human Genetics·Michael C Campbell, Sarah A Tishkoff
Jun 18, 2009·Human Genetics·Joel Gelernter, Henry R Kranzler
Dec 31, 2009·Bioinformatics·Ming-Huei Chen, Qiong Yang
Mar 6, 2010·Proceedings of the National Academy of Sciences of the United States of America·Laura J BierutUNKNOWN Gene, Environment Association Studies Consortium
Mar 31, 2010·Pharmacogenomics·Caroline F ThornRuss B Altman
Jul 10, 2010·Bioinformatics·Cristen J WillerGonçalo R Abecasis
Feb 26, 2011·Nature Genetics·Stephen J Chanock
Apr 22, 2011·Addiction Biology·Karin J H VerweijNicholas G Martin
May 20, 2011·Annals of Human Genetics·Hui LiKenneth K Kidd
Jul 28, 2011·European Journal of Human Genetics : EJHG·Chen SuoYik-Ying Teo
Nov 19, 2011·Nucleic Acids Research·Luana LicataGianni Cesareni
Sep 8, 2012·Genome Research·Alan P BoyleMichael Snyder
Dec 4, 2012·Nucleic Acids Research·Andrea FranceschiniLars J Jensen
Sep 3, 2013·The Journal of Allergy and Clinical Immunology·Katherine A DrakeEsteban G Burchard
Oct 5, 2013·Current Psychiatry Reports·Mary-Anne Enoch
Nov 28, 2013·American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics : the Official Publication of the International Society of Psychiatric Genetics·Ellen E QuillenJoel Gelernter
Nov 29, 2013·Nucleic Acids Research·Liyuan GuoJing Wang
Jan 5, 2014·Human Genetics·Joel Gelernter
Jan 5, 2014·PLoS Genetics·Simon GravelCarlos D Bustamante
Feb 4, 2014·Alcoholism, Clinical and Experimental Research·Karen G ChartierJudith A Arroyo
Mar 14, 2014·Journal of Addictions Nursing·Mary Kay RayensChizimuzo T C Okoli
Apr 30, 2014·Nature Reviews. Genetics·Elinor K KarlssonPardis C Sabeti
May 2, 2014·Nature Communications·Eran ElhaikUNKNOWN Genographic Consortium

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Citations

May 18, 2016·Neuropsychopharmacology : Official Publication of the American College of Neuropsychopharmacology·Renato PolimantiJoel Gelernter
Aug 19, 2016·PloS One·Renato PolimantiJoel Gelernter
Mar 30, 2017·American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics : the Official Publication of the International Society of Psychiatric Genetics·Renato Polimanti, Joel Gelernter
Oct 11, 2017·American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics : the Official Publication of the International Society of Psychiatric Genetics·Renato PolimantiJoel Gelernter
Sep 27, 2018·Alcoholism, Clinical and Experimental Research·Andrew H SmithJoel Gelernter
Jul 12, 2020·American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics : the Official Publication of the International Society of Psychiatric Genetics·Dongbing LaiTatiana Foroud
Jan 31, 2019·Translational Psychiatry·Mauricio Arcos-BurgosMaximilian Muenke
Oct 16, 2015·Addiction Biology·Renato PolimantiJoel Gelernter
Jun 22, 2017·European Journal of Human Genetics : EJHG·Andrea IorioRenato Polimanti

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Software Mentioned

VARIANT ( VARIant ANalysis Tool )
Haplotter
VARIANT
METAL
RegulomeDB
STRING ( Search Tool for the Retrieval of Interacting Genes / ...
Variant Call
MINT
R package
dbGAP

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