GIANT consortium data files

From Giant Consortium

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We are releasing the summary data from our 2010-2017 meta-analyses of Genome-wide Association (GWA) data, in order to enable other researchers to examine particular variants or loci for their evidence of association with anthropometric traits. The files include p-values and direction of effect at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs). To prevent the possibility of identification of individuals from these summary results, we are not releasing allele frequency data from our samples.  
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We are releasing the summary data from our meta-analyses of Genome-Wide Association Studies (GWAS) in order to enable other researchers to examine particular variants or loci for their evidence of association with anthropometric traits. The files include p-values and direction of effect at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs). To prevent the possibility of identification of individuals from these summary results, we are not releasing allele frequency data from our samples.  
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=2018 WHR Exome Public Release Files=
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='''2018 Exome Array Summary Statistics'''=
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==WHR Exome Array Summary Statistics==
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File Name Structure: PublicRelease.WHRadjBMI.*.*.*.txt.gz
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[[Media:Data_File_Description_2018_Exome_Array_Summary_Statistics_WHR_Exome_Array_Summary_Statistics.docx | Download WHR Exome Array Data File Description ]]
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'''Abbreviations in filenames:'''
 
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C-Combined Sexes
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'''WHR Data Files:'''
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*[[Media:PublicRelease.WHRadjBMI.C.All.Add.txt.gz | Download WHRadjBMI.C.All.Add GZIP ]]
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*[[Media:PublicRelease.WHRadjBMI.C.All.Rec.txt.gz | WHRadjBMI.C.All.Rec]]
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*[[Media:PublicRelease.WHRadjBMI.C.Eur.Add.txt.gz | WHRadjBMI.C.Eur.Add]]
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*[[Media:PublicRelease.WHRadjBMI.C.Eur.Rec.txt.gz | WHRadjBMI.C.Eur.Rec]]
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*[[Media:PublicRelease.WHRadjBMI.M.All.Add.txt.gz | WHRadjBMI.M.All.Add]]
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*[[Media:PublicRelease.WHRadjBMI.M.All.Rec.txt.gz | WHRadjBMI.M.All.Rec]]
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*[[Media:PublicRelease.WHRadjBMI.M.Eur.Add.txt.gz | WHRadjBMI.M.Eur.Add]]
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*[[Media:PublicRelease.WHRadjBMI.M.Eur.Rec.txt.gz|WHRadjBMI.M.Eur.Rec]]
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*[[Media:PublicRelease.WHRadjBMI.W.All.Add.txt.gz| WHRadjBMI.W.All.Add]]
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*[[Media:PublicRelease.WHRadjBMI.W.All.Rec.txt.gz | WHRadjBMI.W.All.Rec]]
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*[[Media:PublicRelease.WHRadjBMI.W.Eur.Add.txt.gz|WHRadjBMI.W.Eur.Add]]
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*[[Media:PublicRelease.WHRadjBMI.W.Eur.Rec.txt.gz|WHRadjBMI.W.Eur.Rec]]
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M-Men
 
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W-Women
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==BMI Exome Array Summary Statistics==
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'''BMI Data Files:'''
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*[[Media:BMI_African_American.fmt.gzip|BMI_African_American gzip]]
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*[[Media:BMI_All_ancestry.fmt.gzip|BMI_All_Ancestry gzip]]
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*[[Media:BMI_Eastern_Asian.fmt.gzip| BMI_Eastern_Asian gzip]]
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*[[Media:BMI_European.fmt.gzip| BMI_European gzip]]
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*[[Media:BMI_Hispanic_American.fmt.gzip| BMI_Hispanic_American gzip]]
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*[[Media:BMI_South_Asian.fmt.gzip| BMI_South_Asian gzip]]
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All- All Ancestries
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If you use these data, please cite: Turcot V, Lu Y, Highland HM, Schurmann C, Justice AE, Fine RS, Bradfield JP, Esko T, Giri A, Graff M, Guo X, Hendricks AE, et al. (2018). Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity. Nat Genet. 2018 Jan;50(1):26-41. doi: 10.1038/s41588-017-0011-x. Epub 2017 Dec 22. PMID: 29273807
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Eur- European descent only
 
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Add- Additive genetic model
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==Height Exome Array Summary Statistics==
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Rec- Recessive genetic model
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[[Media:Data_File_Description_2018_Exome_Array_Summary_Statistics_Height_Exome_Array_Summary_Statistics.docx‎ | Download Height Exome Array Data File Description]]
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File headers:
 
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1. snpname - dbSNP rsID
 
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2. chr - chromosome
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'''Height Data Files:'''
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*[[Media:height_HA_add_SV.txt.gz| Download Height HA SV GZIP]]
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3. pos - position
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*[[Media:height_AA_add_SV.txt.gz| Download Height AA SV GZIP]]
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*[[Media:height_EA_add_SV.txt.gz| Download Height EA SV GZIP]]
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4. markername - chr:pos
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*[[Media:height_EAS_add_SV.txt.gz| Download Height EAS SV GZIP]]
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*[[Media:height_SA_add_SV.txt.gz| Download Height SA SV GZIP]]
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5. ref - reference allele (hg19 + strand)
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*[[Media:height_All_add_SV.txt.gz| Download Height All SV GZIP]]
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6. alt - alternate allele (hg19 + strand)
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7. beta - beta   
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8. se - standard error
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9. pvalue  - P value
 
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10. n - sample size
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='''2018 GIANT and UK BioBank Meta-analysis'''=
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11. gmaf/eur_maf - alternate allele frequency in 1000 Genome Combined/European Ancestries
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==WHR GIANT and UK BioBank Meta-analysis Summary Statistics==
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12. exac_maf/exac_nfe_maf -alternate allele frequency in ExAC Combined/Non-Finnish European Ancestries
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'''WHR UK BioBank Meta Analysis for Public Release:'''
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*[[Media: bmi.giant-ukbb.meta-analysis.males.23May2018.HapMap2_only.txt.gz | Download bmi.giant-ukbb.meta-analysis.males.23May2018.HapMap2_only.txt.gz]]
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*[[Media: bmi.giant-ukbb.meta-analysis.females.23May2018.HapMap2_only.txt.gz | Download bmi.giant-ukbb.meta-analysis.females.23May2018.HapMap2_only.txt.gz]]
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*[[Media: bmi.giant-ukbb.meta-analysis.combined.23May2018.HapMap2_only.txt.gz | Download bmi.giant-ukbb.meta-analysis.combined.23May2018.HapMap2_only.txt.gz]]
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*[[Media: whradjbmi.giant-ukbb.meta-analysis.combined.23May2018.HapMap2_only.txt.gz | Download whradjbmi.giant-ukbb.meta-analysis.combined.23May2018.HapMap2_only.txt.gz]]
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*[[Media: whradjbmi.giant-ukbb.meta-analysis.females.23May2018.HapMap2_only.txt.gz | Download whradjbmi.giant-ukbb.meta-analysis.females.23May2018.HapMap2_only.txt.gz]]
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*[[Media: whradjbmi.giant-ukbb.meta-analysis.males.23May2018.HapMap2_only.txt.gz | Download whradjbmi.giant-ukbb.meta-analysis.males.23May2018.HapMap2_only.txt.gz]]
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*[[Media: README_summary_statistics_Pulit_et_al_2018.txt | Download README_summary_statistics_Pulit_et_al_2018.txt]]
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**[[Media:PublicRelease.WHRadjBMI.C.All.Add.txt.gz]]
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Access link for GWAS data for all ~27M sites: https://zenodo.org/record/1251813#.XCLJ7vZKhE4
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**[[Media:PublicRelease.WHRadjBMI.C.All.Rec.txt.gz]]
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DOI (10.5281/zenodo.1251813)
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**[[Media:PublicRelease.WHRadjBMI.C.Eur.Add.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.C.Eur.Rec.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.M.All.Add.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.M.All.Rec.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.M.Eur.Add.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.M.Eur.Rec.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.W.All.Add.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.W.All.Rec.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.W.Eur.Add.txt.gz]]
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**[[Media:PublicRelease.WHRadjBMI.W.Eur.Rec.txt.gz]]
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=2018 GIANT and UK BioBank Meta Analysis for Public Release=
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==BMI and Height GIANT and UK BioBank Meta-analysis Summary Statistics==
Please Note: We discovered that the BMI files for the meta-analysis of UK Biobank and GIANT originally uploaded did not reflect the full sample size and have now been corrected.  If you downloaded these files prior to June 25, 2018, please download them again. Our apologies for any inconvenience.
Please Note: We discovered that the BMI files for the meta-analysis of UK Biobank and GIANT originally uploaded did not reflect the full sample size and have now been corrected.  If you downloaded these files prior to June 25, 2018, please download them again. Our apologies for any inconvenience.
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*[[Media: README_summary_statistics_Yengo_et_al_2018.txt | Download  README Summary Statistics for Yengo et al 2018]]
*[[Media: README_summary_statistics_Yengo_et_al_2018.txt | Download  README Summary Statistics for Yengo et al 2018]]
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If you use this data please cite: Yengo L, Sidorenko J, Kemper KE, Zheng Z, Wood AR, Weedon MN, Frayling TM, Hirschhorn J, Yang J, Visscher PM, GIANT Consortium. (2018). Meta-analysis of genome-wide association studies for height and body mass index in ~700,000 individuals of European ancestry. Biorxiv.
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If you use these data, please cite: Yengo L, Sidorenko J, Kemper KE, Zheng Z, Wood AR, Weedon MN, Frayling TM, Hirschhorn J, Yang J, Visscher PM, GIANT Consortium. (2018). Meta-analysis of genome-wide association studies for height and body mass index in ~700,000 individuals of European ancestry. Biorxiv.
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=2018 GIANT BMI Exome Array for Public Release=
 
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*'''BMI Data Files'''
 
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**[[Media:BMI_African_American.fmt.gzip|BMI_African_American gzip]]
 
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**[[Media:BMI_All_ancestry.fmt.gzip|BMI_All_Ancestry gzip]]
 
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**[[Media:BMI_Eastern_Asian.fmt.gzip| BMI_Eastern_Asian gzip]]
 
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**[[Media:BMI_European.fmt.gzip| BMI_European gzip]]
 
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**[[Media:BMI_Hispanic_American.fmt.gzip| BMI_Hispanic_American gzip]]
 
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**[[Media:BMI_South_Asian.fmt.gzip| BMI_South_Asian gzip]]
 
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If you use this data please cite: Turcot V, Lu Y, Highland HM, Schurmann C, Justice AE, Fine RS, Bradfield JP, Esko T, Giri A, Graff M, Guo X, Hendricks AE, et al. (2018). Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity. Nat Genet. 2018 Jan;50(1):26-41. doi: 10.1038/s41588-017-0011-x. Epub 2017 Dec 22. PMID: 29273807
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='''2017 Gene x Environment Summary Statistics'''=
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=2017 GIANT GxSMK Project Files for Public Release=
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==Summary Statistics for Models Adjusting for Smoking Status==
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== '''Summary Statistics for Models Adjusting for Smoking Status''' ==
 
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'''Column headers:'''
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[[Media:Data_File_Description_2017_Gene_x_Environment_Summary_Statistics_Summary_Statistics_for_Models_Adjusting_for_Smoking_Status.docx | Download Models Adjusting for Smoking Status Data File Description]]
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1. chromosome
 
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2. rs_id: dbSNP ID
 
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3. markername: chr:pos
 
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4. allele_1: effect allele
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'''BMI:'''
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*[[Media: BMI.SNPadjSMK.zip | Download BMI.SNPadjSMK.zip]]
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5. allele_2: other allele
 
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6. freq_Allele1_HapMapCEU: The allele frequency of Allele1 in the HapMap CEU population
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'''WCadjBMI:'''
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*[[Media: WCadjBMI.SNPadjSMK.zip | Download WCadjBMI.SNPadjSMK.zip ]]
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7. effect: beta
 
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8. stderr: standard error
 
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9. p_value: p-value after correction for inflation of test statistics using genomic control both at the individual study level and again after meta-analysis
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'''WHRadjBMI:'''
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*[[Media: WHRadjBMI.SNPadjSMK.zip | Download WHRadjBMI GZIP]]
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10. N: sample size
 
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*'''BMI Data Files'''
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==Summary Statistics for Smoking Stratified Models==
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**[[Media: BMI.SNPadjSMK.zip | Download BMI GZIP]]
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BMI.SNPadjSMK.CombinedSexes.EuropeanOnly.txt
 
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BMI.SNPadjSMK.CombinedSexes.AllAncestry.txt
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[[Media:Data_File_Description_2017_Gene_x_Environment_Summary_Statistics_Summary_Statistics_for_Smoking_Stratified_Models.docx‎ | Download Smoking Stratified Models Data File Description]]
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BMI.SNPadjSMK.Men.EuropeanOnly.txt
 
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BMI.SNPadjSMK.Men.AllAncestry.txt
 
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BMI.SNPadjSMK.Women.EuropeanOnly.txt
 
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BMI.SNPadjSMK.Women.AllAncestry.txt
 
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*'''WCadjBMI:'''
 
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**[[Media: WCadjBMI.SNPadjSMK.zip | Download WCadjBMI.SNPadjSMK.zip ]]
 
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WCadjBMI.SNPadjSMK.CombinedSexes.EuropeanOnly.txt
 
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WCadjBMI.SNPadjSMK.CombinedSexes.AllAncestry.txt
 
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WCadjBMI.SNPadjSMK.Men.EuropeanOnly.txt
 
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WCadjBMI.SNPadjSMK.Men.AllAncestry.txt
 
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WCadjBMI.SNPadjSMK.Women.EuropeanOnly.txt
 
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WCadjBMI.SNPadjSMK.Women.AllAncestry.txt
 
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*'''WHRadjBMI:'''
 
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**[[Media: WHRadjBMI.SNPadjSMK.zip | Download WHRadjBMI GZIP]]
 
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WHRadjBMI.SNPadjSMK.CombinedSexes.EuropeanOnly.txt
 
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WHRadjBMI.SNPadjSMK.CombinedSexes.AllAncestry.txt
 
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WHRadjBMI.SNPadjSMK.Men.EuropeanOnly.txt
 
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WHRadjBMI.SNPadjSMK.Men.AllAncestry.txt
 
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WHRadjBMI.SNPadjSMK.Women.EuropeanOnly.txt
 
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WHRadjBMI.SNPadjSMK.Women.AllAncestry.txt
 
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== '''Summary Statistics for Stratified Models''' ==
 
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'''Column headers:'''
 
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1. Chromosome
 
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2. rs_id: dbSNP ID 
 
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3. markername: chr:pos 
 
    
    
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4. position_hg18: base pair position on build hg18 
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'''BMI:'''
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*[[Media: BMI.Stratified.zip | Download BMI.Stratified.zip]]
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5. Effect_allele 
 
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6. Other_allele
 
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7. EAF_HapMapCEU:  The allele frequency of Allele1 in the HapMap CEU population
 
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8. N_SMK: sample size for smokers
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'''WCadjBMI:'''
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*[[Media: WCadjBMI.Stratified.zip | Download WCadjBMI.Stratified.zip]]
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9. Effect_SMK: beta in smokers     
 
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10. StdErr_SMK: standard error in smokers     
 
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11. P_value_SMK: p- value for smokers after correction for inflation of test statistics using genomic control both at the individual study level and again after meta-analysis   
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'''WHRadjBMI:'''
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*[[Media: WHRadjBMI.Stratified.zip | Download WHRadjBMI.Stratified.zip]]
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12. N_NONSMK: sample size for nonsmokers         
 
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13. Effect_NonSMK: beta in nonsmokers       
 
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14. StdErr_NonSMK: standard error in nonsmokers     
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==Summary Statistics for Gene x Physical Activity==
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15. P_value_NonSMK: p- value for nonsmokers after correction for inflation of test statistics using genomic control both at the individual study level and again after meta-analysis   
 
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*'''BMI:'''
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[[Media:Data_File_Description_2017_Gene_x_Environment_Summary_Statistics_Summary_Statistics_for_Gene_x_Physical_Activity.docx | Download Gene x Physical Activity Data File Description]]
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**[[Media: BMI.Stratified.zip | Download BMI GZIP]]
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BMI.StratifiedBySMK.CombinedSexes.EuropeanOnly.txt
 
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BMI.StratifiedBySMK.CombinedSexes.AllAncestry.txt
 
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BMI.StratifiedBySMK.Men.EuropeanOnly.txt
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'''BMI Data Files:'''
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*BMI Active
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**[[Media: BMI.ACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: BMI.ACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: BMI.ACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: BMI.ACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: BMI.ACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: BMI.ACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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*BMI Inactive
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**[[Media: BMI.INACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: BMI.INACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: BMI.INACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: BMI.INACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: BMI.INACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: BMI.INACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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*BMI SNPadjPA
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**[[Media: BMI.SNPadjPA.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: BMI.SNPadjPA.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: BMI.SNPadjPA.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: BMI.SNPadjPA.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: BMI.SNPadjPA.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: BMI.SNPadjPA.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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BMI.StratifiedBySMK.Men.AllAncestry.txt
 
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BMI.StratifiedBySMK.Women.EuropeanOnly.txt
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'''WAISTadjBMI Data Files:'''
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*WAISTadjBMI Active
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**[[Media: WAISTadjBMI.ACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.ACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: WAISTadjBMI.ACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.ACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: WAISTadjBMI.ACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.ACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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*WAISTadjBMI Inactive
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**[[Media: WAISTadjBMI.INACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.INACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: WAISTadjBMI.INACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.INACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: WAISTadjBMI.INACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.INACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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*WAISTadjBMI SNPadjPA
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**[[Media: WAISTadjBMI.SNPadjPA.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.SNPadjPA.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: WAISTadjBMI.SNPadjPA.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.SNPadjPA.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: WAISTadjBMI.SNPadjPA.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: WAISTadjBMI.SNPadjPA.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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BMI.StratifiedBySMK.Women.AllAncestry.txt
 
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'''WHRadjBMI Data Files:'''
 +
*WHRadjBMI Active
 +
**[[Media: WHRadjBMI.ACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: WHRadjBMI.ACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: WHRadjBMI.ACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: WHRadjBMI.ACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: WHRadjBMI.ACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: WHRadjBMI.ACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
 +
*WHRadjBMI Inactive
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**[[Media: WHRadjBMI.INACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: WHRadjBMI.INACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: WHRadjBMI.INACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: WHRadjBMI.INACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
 +
**[[Media: WHRadjBMI.INACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
 +
**[[Media: WHRadjBMI.INACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
 +
*WHRadjBMI SNPadjPA
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**[[Media: WHRadjBMI.SNPadjPA.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
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**[[Media: WHRadjBMI.SNPadjPA.ALL.European.txt.gz | Download All European Ancestry GZIP]]
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**[[Media: WHRadjBMI.SNPadjPA.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
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**[[Media: WHRadjBMI.SNPadjPA.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
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**[[Media: WHRadjBMI.SNPadjPA.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
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**[[Media: WHRadjBMI.SNPadjPA.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
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*'''WCadjBMI:'''
 
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**[[Media: WCadjBMI.Stratified.zip | Download WCadjBMI GZIP]]
 
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WCadjBMI.StratifiedBySMK.CombinedSexes.EuropeanOnly.txt
 
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WCadjBMI.StratifiedBySMK.CombinedSexes.AllAncestry.txt
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='''GIANT Consortium 2012-2015 GWAS Summary Statistics'''=
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WCadjBMI.StratifiedBySMK.Men.EuropeanOnly.txt
 
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WCadjBMI.StratifiedBySMK.Men.AllAncestry.txt
 
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WCadjBMI.StratifiedBySMK.Women.EuropeanOnly.txt
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[[Media:Data_File_Description_2012-2015_GIANT_GWAS_Summary_Statistics.docx | Download 2012-2015 GIANT GWAS Summary Statistics Data File Description]]
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WCadjBMI.StratifiedBySMK.Women.AllAncestry.txt
 
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*'''WHRadjBMI:'''
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==GWAS Age-/Sex-Stratified 2015 BMI and WHR Summary Statistics==
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**[[Media: WHRadjBMI.Stratified.zip | Download WHRadjBMI GZIP]]
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WHRadjBMI.StratifiedBySMK.CombinedSexes.EuropeanOnly.txt
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WHRadjBMI.StratifiedBySMK.CombinedSexes.AllAncestry.txt
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WHRadjBMI.StratifiedBySMK.Men.EuropeanOnly.txt
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WHRadjBMI.StratifiedBySMK.Men.AllAncestry.txt
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WHRadjBMI.StratifiedBySMK.Women.EuropeanOnly.txt
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WHRadjBMI.StratifiedBySMK.Women.AllAncestry.txt
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= 2017 GIANT Gene-Physical Activity Interaction Meta-analysis Files Available Here for Download =
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*Column1: rsid
+
-
*Column2: Chromosome
+
-
*Column3: Position_hg19
+
-
*Column4: Effect_allele (positive strand)
+
-
*Column5: Other_allele (positive strand)
+
-
*Column6: EAF_HapMapCEU (frequency of effect allele based on the HapMap CEU reference population)
+
-
*Column7: Sample_size
+
-
*Column8: Effect effect estimate
+
-
*Column9: Stderr standard error
+
-
*Column10: Pvalue (p-value after meta-analysis in METAL based on regression coefficients: effect and standard error)
+
-
*Column11: HetIsq
+
-
 
+
-
'''File naming scheme:'''
+
-
*Trait: BMI, WaistadjBMI (Waist circumference adjusted for BMI), WHRadjBMI (Waist-to-hip ratio adjusted for BMI)
+
-
 
+
-
*Physical activity: ACTIVE (individuals defined as active), INACTIVE (individuals defined as inactive), SNPadjPA (all individuals, added covariate of physical activity level)
+
-
 
+
-
*Gender: MEN, WOMEN, ALL (Men and Women)
+
-
 
+
-
*Ancestry: European (only European cohorts included in meta-anlaysis), All Ancestry (all cohorts included)
+
-
 
+
-
 
+
-
*'''BMI Data Files'''
+
-
**BMI Active
+
-
***[[Media: BMI.ACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: BMI.ACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: BMI.ACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: BMI.ACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: BMI.ACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: BMI.ACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
**BMI Inactive
+
-
***[[Media: BMI.INACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: BMI.INACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: BMI.INACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: BMI.INACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: BMI.INACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: BMI.INACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
**BMI SNPadjPA
+
-
***[[Media: BMI.SNPadjPA.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: BMI.SNPadjPA.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: BMI.SNPadjPA.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: BMI.SNPadjPA.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: BMI.SNPadjPA.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: BMI.SNPadjPA.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
 
+
-
 
+
-
*'''WAISTadjBMI Data Files'''
+
-
**WAISTadjBMI Active
+
-
***[[Media: WAISTadjBMI.ACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.ACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: WAISTadjBMI.ACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.ACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: WAISTadjBMI.ACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.ACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
**WAISTadjBMI Inactive
+
-
***[[Media: WAISTadjBMI.INACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.INACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: WAISTadjBMI.INACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.INACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: WAISTadjBMI.INACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.INACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
**WAISTadjBMI SNPadjPA
+
-
***[[Media: WAISTadjBMI.SNPadjPA.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.SNPadjPA.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: WAISTadjBMI.SNPadjPA.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.SNPadjPA.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: WAISTadjBMI.SNPadjPA.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: WAISTadjBMI.SNPadjPA.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
 
+
-
 
+
-
*'''WHRadjBMI Data Files'''
+
-
**WHRadjBMI Active
+
-
***[[Media: WHRadjBMI.ACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.ACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: WHRadjBMI.ACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.ACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: WHRadjBMI.ACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.ACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
**WHRadjBMI Inactive
+
-
***[[Media: WHRadjBMI.INACTIVE.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.INACTIVE.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: WHRadjBMI.INACTIVE.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.INACTIVE.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: WHRadjBMI.INACTIVE.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.INACTIVE.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
**WHRadjBMI SNPadjPA
+
-
***[[Media: WHRadjBMI.SNPadjPA.ALL.AllAncestry.txt.gz | Download All AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.SNPadjPA.ALL.European.txt.gz | Download All European Ancestry GZIP]]
+
-
***[[Media: WHRadjBMI.SNPadjPA.MEN.AllAncestry.txt.gz | Download Men AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.SNPadjPA.MEN.European.txt.gz | Download Men European Ancestry GZIP]]
+
-
***[[Media: WHRadjBMI.SNPadjPA.WOMEN.AllAncestry.txt.gz | Download Women AllAncestry GZIP]]
+
-
***[[Media: WHRadjBMI.SNPadjPA.WOMEN.European.txt.gz | Download Women European Ancestry GZIP]]
+
-
 
+
-
= GIANT Consortium 2016 Exome Array Data is Available Here for Download = 
+
-
 
+
-
*[[Media:height_HA_add_SV.txt.gz| Download Height HA SV GZIP]]
+
-
*[[Media:height_AA_add_SV.txt.gz| Download Height AA SV GZIP]]
+
-
*[[Media:height_EA_add_SV.txt.gz| Download Height EA SV GZIP]]
+
-
*[[Media:height_EAS_add_SV.txt.gz| Download Height EAS SV GZIP]]
+
-
*[[Media:height_SA_add_SV.txt.gz| Download Height SA SV GZIP]]
+
-
*[[Media:height_All_add_SV.txt.gz| Download Height All SV GZIP]]
+
-
 
+
-
===2016 Data File Description:===
+
-
Each file consists of the following information for each SNP and its association to the specified trait based on meta-analysis in the respective publication. Significant digits for the p values, betas and standard errors are limited to two digits to further limit the possibility of identifiability.
+
-
 
+
-
*Column 1. CHR: chromosome
+
-
*Column 2. POS: position of the variant (hg19)
+
-
*Column 3. REF: reference allele (hg19 + strand)
+
-
*Column 4. ALT: alternate allele (hg19 + strand)
+
-
*Column 5. SNPNAME: dbSNP name of the genetic marker
+
-
*Column 6. (one among these)
+
-
**GMAF: Non-reference allele and frequency of existing variant in 1000 Genomes
+
-
**AFR_MAF: Non-reference allele and frequency of existing variant in 1000 Genomes combined African population
+
-
**AMR_MAF: Non-reference allele and frequency of existing variant in 1000 Genomes combined American population
+
-
**EUR_MAF: Non-reference allele and frequency of existing variant in 1000 Genomes combined European population
+
-
**EAS_MAF: Non-reference allele and frequency of existing variant in 1000 Genomes combined East Asian population
+
-
**SAS_MAF: Non-reference allele and frequency of existing variant in 1000 Genomes combined South Asian population
+
-
*Column 7. (one among these)
+
-
**ExAC_MAF: Frequency of existing variant in ExAC combined population
+
-
**ExAC_AFR_MAF: Frequency of existing variant in ExAC African/American population
+
-
**ExAC_AMR_MAF: Frequency of existing variant in ExAC American population
+
-
**ExAC_EAS_MAF: Frequency of existing variant in ExAC East Asian population
+
-
**ExAC_NFE_MAF: Frequency of existing variant in ExAC Non-Finnish European population
+
-
**ExAC_SAS_MAF: Frequency of existing variant in ExAC South Asian population
+
-
*Column 8. beta: beta
+
-
*Column 9. se: standard error
+
-
*Column 10. Pvalue: p-value after meta-analysis using regression coefficients (beta and standard error)
+
-
 
+
-
= GIANT consortium 2012-2015 GWAS Metadata is Available Here for Download =
+
-
 
+
-
===2012-2015 Data File Description:===
+
-
Each file consists of the following information for each SNP and its association to the specified trait based on meta-analysis in the respective publication. Significant digits for the p values, betas and standard errors are limited to two digits to further limit the possibility of identifiability.
+
-
*'''MarkerName''': The [http://www.ncbi.nlm.nih.gov/SNP/ dbSNP] name of the genetic marker
+
-
*'''Allele1''': The first allele (hg19 + strand). Where the regression coefficients (betas) are provided, the first allele is the effect allele.  Where betas are not provided (typically the 2010 data), the first allele is the trait-increasing allele.
+
-
*'''Allele2''': The second allele (hg19 + strand)
+
-
*'''Freq.Allele1.HapMapCEU''': The allele frequency of Allele1 in the [http://www.hapmap.org HapMap] CEU population
+
-
*'''b''': beta
+
-
*'''SE''': standard error
+
-
*'''p''': p-value after meta-analysis using regression coefficients (beta and standard error), and after correction for inflation of test statistics using genomic control both at the individual study level and again after meta-analysis
+
-
*'''N''': Number of observations
+
-
 
+
-
 
+
-
For the Height DEPICT Gene Set Enrichment Analysis file, the columns are as follows:
+
-
*'''A''': the ID of the predefined gene set (before reconstitution by DEPICT);
+
-
*'''B''': the name of the gene set;
+
-
*'''C''': the DEPICT P-value for enrichment;
+
-
*'''D''': the false discovery rate for enrichment;
+
-
*'''E''': the genes in the gene set that overlap height-associated loci
+
-
 
+
-
 
+
-
==GWAMA Age-/Sex-Stratified 2015 BMI and WHR==
+
*[[Media:BMI.MEN.GT50.publicrelease.txt.gz | Download BMI Men >=50y GZIP]]
*[[Media:BMI.MEN.GT50.publicrelease.txt.gz | Download BMI Men >=50y GZIP]]
Line 410: Line 232:
If you use these data, please cite: Winkler TW*, Justice AE*, Graff M*, Barata L*, Feitosa MF, Chu S, Czajkowski J, Esko T, Fall T, Kilpeläinen TO, Lu Y, Mägi R et al. (2015). The influence of age and sex on genetic associations with adult body size and shape: a large-scale genome-wide interaction study. PLoS Genetics. In press.
If you use these data, please cite: Winkler TW*, Justice AE*, Graff M*, Barata L*, Feitosa MF, Chu S, Czajkowski J, Esko T, Fall T, Kilpeläinen TO, Lu Y, Mägi R et al. (2015). The influence of age and sex on genetic associations with adult body size and shape: a large-scale genome-wide interaction study. PLoS Genetics. In press.
-
==GWAS Anthropometric 2015 BMI==
+
 
 +
==GWAS Anthropometric 2015 BMI Summary Statistics==
*[[Media:Men_SNP_gwas_mc_merge_nogc.tbl.uniq.gz|Download BMI Men Only GZIP]]
*[[Media:Men_SNP_gwas_mc_merge_nogc.tbl.uniq.gz|Download BMI Men Only GZIP]]
Line 421: Line 244:
If you use these '''BMI''' data, please cite: Locke AE, Kahali B, Berndt SI, Justice AE, Pers TH, Day FR, Powell C, Vedantam S, Buchkovich ML, Yang J, Croteau-Chonka DC, Esko T et al. (2015). Genetic studies of body mass index yield new insights for obesity biology. Nature 518, 197-206.
If you use these '''BMI''' data, please cite: Locke AE, Kahali B, Berndt SI, Justice AE, Pers TH, Day FR, Powell C, Vedantam S, Buchkovich ML, Yang J, Croteau-Chonka DC, Esko T et al. (2015). Genetic studies of body mass index yield new insights for obesity biology. Nature 518, 197-206.
-
==GWAS Anthropometric 2015 Waist==
+
 
 +
==GWAS Anthropometric 2015 Waist Summary Statistics==
'''HIP:'''
'''HIP:'''
*[[Media:GIANT_2015_HIP_MALES_EUR.txt.gz| Download HIP Males EUR GZIP]]
*[[Media:GIANT_2015_HIP_MALES_EUR.txt.gz| Download HIP Males EUR GZIP]]
Line 470: Line 294:
*[[Media:GIANT_2015_WHRadjBMI_COMBINED_AllAncestries.txt.gz| Download WHRadjBMI Combined All Ancestries GZIP]]
*[[Media:GIANT_2015_WHRadjBMI_COMBINED_AllAncestries.txt.gz| Download WHRadjBMI Combined All Ancestries GZIP]]
-
If you use these '''Waist''' data please cite: Shungin D, Winkler TW, Croteau-Chonka DC, Ferreira T, Locke AE, Magi R, Strawbridge R, Pers TH, Fischer K, Justice AE, Workalemahu T, Wu JM, et al. (2015). New genetic loci link adipose and insulin biology to body fat distribution. Nature <strong>518</strong>: 187-196.
+
If you use these '''Waist''' data, please cite: Shungin D, Winkler TW, Croteau-Chonka DC, Ferreira T, Locke AE, Magi R, Strawbridge R, Pers TH, Fischer K, Justice AE, Workalemahu T, Wu JM, et al. (2015). New genetic loci link adipose and insulin biology to body fat distribution. Nature <strong>518</strong>: 187-196.
-
==GWAS Anthropometric 2014 Height==
+
 
 +
==GWAS Anthropometric 2014 Height Summary Statistics==
*[[Media:GIANT_HEIGHT_Wood_et_al_2014_publicrelease_HapMapCeuFreq.txt.gz|Download Height GZIP]]
*[[Media:GIANT_HEIGHT_Wood_et_al_2014_publicrelease_HapMapCeuFreq.txt.gz|Download Height GZIP]]
Line 480: Line 305:
If you use these '''Height''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=25282103 Wood AR, Esko T, Yang J, Vedantam S, Pers TH, Gustafsson S et al.] (2014). Defining the role of common variation in the genomic and biological architecture of adult human height. Nature Genetics <strong>11</strong>:1173-86.
If you use these '''Height''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=25282103 Wood AR, Esko T, Yang J, Vedantam S, Pers TH, Gustafsson S et al.] (2014). Defining the role of common variation in the genomic and biological architecture of adult human height. Nature Genetics <strong>11</strong>:1173-86.
-
==Variability in BMI and Height==
+
 
 +
==Variability in BMI and Height Summary Statistics==
*[[Media:GIANT_Yang2012Nature_publicrelease_HapMapCeuFreq_BMI.txt.gz|Download BMI GZIP]]
*[[Media:GIANT_Yang2012Nature_publicrelease_HapMapCeuFreq_BMI.txt.gz|Download BMI GZIP]]
Line 488: Line 314:
If you use these '''Body Mass Index''' or '''Height''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=22982992 Yang J, Loos RJ, Powell JE, Medland SE, Speliotes EK, Chasman DI, Rose LM, Thorleifsson G, Steinthorsdottir V, Mägi R, et al.] (2012). FTO genotype is associated with phenotypic variability of body mass index. Nature <strong>490</strong>:267-272.
If you use these '''Body Mass Index''' or '''Height''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=22982992 Yang J, Loos RJ, Powell JE, Medland SE, Speliotes EK, Chasman DI, Rose LM, Thorleifsson G, Steinthorsdottir V, Mägi R, et al.] (2012). FTO genotype is associated with phenotypic variability of body mass index. Nature <strong>490</strong>:267-272.
-
==Sex Stratified Anthropometrics==
+
 
 +
==Sex Stratified Anthropometrics Summary Statistics==
*[[Media:GIANT_Randall2013PlosGenet_stage1_publicrelease_HapMapCeuFreq_BMI_MEN_N.txt|Download BMI Men]]
*[[Media:GIANT_Randall2013PlosGenet_stage1_publicrelease_HapMapCeuFreq_BMI_MEN_N.txt|Download BMI Men]]
Line 519: Line 346:
If you use these data, please cite: [http://www.ncbi.nlm.nih.gov/pubmed/23754948?dopt=Citation Randall JC, Winkler TW, Kutalik Z, Berndt SI, Jackson AU, Monda KL, Kilpeläinen TO, Esko T, Mägi R, Li S, et al.] (2013). Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits. PLoS Genet <strong>9</strong>: e1003500.
If you use these data, please cite: [http://www.ncbi.nlm.nih.gov/pubmed/23754948?dopt=Citation Randall JC, Winkler TW, Kutalik Z, Berndt SI, Jackson AU, Monda KL, Kilpeläinen TO, Esko T, Mägi R, Li S, et al.] (2013). Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits. PLoS Genet <strong>9</strong>: e1003500.
-
==Extremes of Anthropometric Traits==
+
 
 +
==Extremes of Anthropometric Traits Summary Statistics==
*[[Media:GIANT_EXTREME_BMI_Stage1_Berndt2013_publicrelease_HapMapCeuFreq.txt.gz|Download Extreme BMI Stage 1 GZIP]]
*[[Media:GIANT_EXTREME_BMI_Stage1_Berndt2013_publicrelease_HapMapCeuFreq.txt.gz|Download Extreme BMI Stage 1 GZIP]]
Line 537: Line 365:
If you use these data, please cite: [http://www.ncbi.nlm.nih.gov/pubmed/23563607?dopt=Citation Berndt SI, Gustafsson S, Mägi R, Ganna A, Wheeler E, Feitosa MF, Justice AE, Monda KL, Croteau-Chonka DC, Day FR, et al.] (2013). Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. Nature Genetics <strong>45</strong>:501-512.
If you use these data, please cite: [http://www.ncbi.nlm.nih.gov/pubmed/23563607?dopt=Citation Berndt SI, Gustafsson S, Mägi R, Ganna A, Wheeler E, Feitosa MF, Justice AE, Monda KL, Croteau-Chonka DC, Day FR, et al.] (2013). Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. Nature Genetics <strong>45</strong>:501-512.
-
= GIANT Consortium 2010 GWAS Metadata is Available Here for Download =
 
-
===2010 Data File Description:===
 
-
Each file consists of the following information for each SNP and its association to the specified trait based on meta-analysis in the respective publication. SNPs where N < 50% of the maximum have been excluded.
+
='''GIANT Consortium 2010 GWAS Summary Statistics'''=
-
*'''MarkerName''': The [http://www.ncbi.nlm.nih.gov/SNP/ dbSNP] name of the genetic marker
 
-
*'''Allele1''': The first allele, by definition the trait-increasing allele (hg18 + strand)
 
-
*'''Allele2''': The second allele (hg18 + strand)
 
-
*'''Freq.Allele1.HapMapCEU''': The allele frequency of Allele1 in the [http://www.hapmap.org HapMap] CEU population
 
-
*'''P''': P value after meta-analysis using regression coefficients (beta and standard error), and after correction for inflation of test statistics using genomic control both at the individual study level and again after meta-analysis
 
-
*'''N''': Number of observations
 
-
== BMI ([[Media:GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt.gz|download GZIP]]) ==
+
 
-
<tt>MD5 ([[media:GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt|GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt]] -- 79 MB; 2,471,517 lines) = 38c836542807a3830101bcf48bb34472</tt>
+
[[Media:Data_File_Description_2010_GIANT_Consortium_2010_GWAS_Summary_Statistics.docx | Download GIANT Consortium 2010 GWAS Summary Statistics Data File Description]]
 +
 
 +
 
 +
 
 +
==GWAS 2010 BMI Summary Statistics==
 +
 
 +
*[[Media:GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt.gz|Download BMI GWAS Summary Statistics GZIP]]
If you use these '''Body Mass Index''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=20935630 Speliotes, E.K., Willer, C.J., Berndt, S.I., Monda, K.L., Thorleifsson, G., Jackson, A.U., Allen, H.L., Lindgren, C.M., Luan, J., Magi, R., et al.] (2010). Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index. Nat Genet <strong>42</strong>, 937-948.
If you use these '''Body Mass Index''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=20935630 Speliotes, E.K., Willer, C.J., Berndt, S.I., Monda, K.L., Thorleifsson, G., Jackson, A.U., Allen, H.L., Lindgren, C.M., Luan, J., Magi, R., et al.] (2010). Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index. Nat Genet <strong>42</strong>, 937-948.
-
== Height ([[Media:GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt.gz ‎|download GZIP]]) ==
 
-
<tt>MD5 ([[media:GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt|GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt]] -- 82 MB; 2,469,636 lines) = b51b4c4ff1f03bd33c4b2dfd6b10cb82</tt>
 
-
If you use these '''height''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=20881960 Lango Allen, H., Estrada, K., Lettre, G., Berndt, S.I., Weedon, M.N., Rivadeneira, F., Willer, C.J., Jackson, A.U., Vedantam, S., Raychaudhuri, S., et al.] (2010). Hundreds of variants clustered in genomic loci and biological pathways affect human height. Nature <strong>467</strong>, 832-838.
+
==GWAS 2010 Height Summary Statistics==
 +
 
 +
*[[Media:GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt.gz ‎|Download Height for BMI Summary Statistics GZIP]]
 +
 
 +
If you use these '''Height''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=20881960 Lango Allen, H., Estrada, K., Lettre, G., Berndt, S.I., Weedon, M.N., Rivadeneira, F., Willer, C.J., Jackson, A.U., Vedantam, S., Raychaudhuri, S., et al.] (2010). Hundreds of variants clustered in genomic loci and biological pathways affect human height. Nature <strong>467</strong>, 832-838.
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== WHRadjBMI ([[Media:GIANT WHRadjBMI Heid2010 publicrelease HapMapCeuFreq.txt.gz |download GZIP]]) ==
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==GWAS 2010 WHRadjBMI Summary Statistics==
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<tt>MD5 ([[media:GIANT_WHRadjBMI_Heid2010_publicrelease_HapMapCeuFreq.txt|GIANT_WHRadjBMI_Heid2010_publicrelease_HapMapCeuFreq.txt]] -- 75 MB; 2,483,326 lines) = 8f7e2ca61c33a120db9e7bfe51e3c053</tt>
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*[[Media:GIANT WHRadjBMI Heid2010 publicrelease HapMapCeuFreq.txt.gz |Download WHRadjBMI Summary Statistics GZIP]]
If you use these '''waist-hip ratio adjusted for BMI''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=20935629 Heid, I.M., Jackson, A.U., Randall, J.C., Winkler, T.W., Qi, L., Steinthorsdottir, V., Thorleifsson, G., Zillikens, M.C., Speliotes, E.K., Magi, R., et al.] (2010). Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution. Nat Genet <strong>42</strong>, 949-960.
If you use these '''waist-hip ratio adjusted for BMI''' data, please cite: [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&amp;db=PubMed&amp;dopt=Citation&amp;list_uids=20935629 Heid, I.M., Jackson, A.U., Randall, J.C., Winkler, T.W., Qi, L., Steinthorsdottir, V., Thorleifsson, G., Zillikens, M.C., Speliotes, E.K., Magi, R., et al.] (2010). Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution. Nat Genet <strong>42</strong>, 949-960.

Latest revision as of 21:10, 2 May 2019

We are releasing the summary data from our meta-analyses of Genome-Wide Association Studies (GWAS) in order to enable other researchers to examine particular variants or loci for their evidence of association with anthropometric traits. The files include p-values and direction of effect at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs). To prevent the possibility of identification of individuals from these summary results, we are not releasing allele frequency data from our samples.


Contents

2018 Exome Array Summary Statistics

WHR Exome Array Summary Statistics

Download WHR Exome Array Data File Description


WHR Data Files:


BMI Exome Array Summary Statistics

BMI Data Files:

If you use these data, please cite: Turcot V, Lu Y, Highland HM, Schurmann C, Justice AE, Fine RS, Bradfield JP, Esko T, Giri A, Graff M, Guo X, Hendricks AE, et al. (2018). Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity. Nat Genet. 2018 Jan;50(1):26-41. doi: 10.1038/s41588-017-0011-x. Epub 2017 Dec 22. PMID: 29273807


Height Exome Array Summary Statistics

Download Height Exome Array Data File Description


Height Data Files:


2018 GIANT and UK BioBank Meta-analysis

WHR GIANT and UK BioBank Meta-analysis Summary Statistics

WHR UK BioBank Meta Analysis for Public Release:

Access link for GWAS data for all ~27M sites: https://zenodo.org/record/1251813#.XCLJ7vZKhE4 DOI (10.5281/zenodo.1251813)


BMI and Height GIANT and UK BioBank Meta-analysis Summary Statistics

Please Note: We discovered that the BMI files for the meta-analysis of UK Biobank and GIANT originally uploaded did not reflect the full sample size and have now been corrected. If you downloaded these files prior to June 25, 2018, please download them again. Our apologies for any inconvenience.

If you use these data, please cite: Yengo L, Sidorenko J, Kemper KE, Zheng Z, Wood AR, Weedon MN, Frayling TM, Hirschhorn J, Yang J, Visscher PM, GIANT Consortium. (2018). Meta-analysis of genome-wide association studies for height and body mass index in ~700,000 individuals of European ancestry. Biorxiv.


2017 Gene x Environment Summary Statistics

Summary Statistics for Models Adjusting for Smoking Status

Download Models Adjusting for Smoking Status Data File Description


BMI:


WCadjBMI:


WHRadjBMI:


Summary Statistics for Smoking Stratified Models

Download Smoking Stratified Models Data File Description


BMI:


WCadjBMI:


WHRadjBMI:


Summary Statistics for Gene x Physical Activity

Download Gene x Physical Activity Data File Description


BMI Data Files:


WAISTadjBMI Data Files:


WHRadjBMI Data Files:


GIANT Consortium 2012-2015 GWAS Summary Statistics

Download 2012-2015 GIANT GWAS Summary Statistics Data File Description


GWAS Age-/Sex-Stratified 2015 BMI and WHR Summary Statistics

If you use these data, please cite: Winkler TW*, Justice AE*, Graff M*, Barata L*, Feitosa MF, Chu S, Czajkowski J, Esko T, Fall T, Kilpeläinen TO, Lu Y, Mägi R et al. (2015). The influence of age and sex on genetic associations with adult body size and shape: a large-scale genome-wide interaction study. PLoS Genetics. In press.


GWAS Anthropometric 2015 BMI Summary Statistics

If you use these BMI data, please cite: Locke AE, Kahali B, Berndt SI, Justice AE, Pers TH, Day FR, Powell C, Vedantam S, Buchkovich ML, Yang J, Croteau-Chonka DC, Esko T et al. (2015). Genetic studies of body mass index yield new insights for obesity biology. Nature 518, 197-206.


GWAS Anthropometric 2015 Waist Summary Statistics

HIP:

HIPadjBMI:

WC:

WCadjBMI:

WHR:

WHRadjBMI:

If you use these Waist data, please cite: Shungin D, Winkler TW, Croteau-Chonka DC, Ferreira T, Locke AE, Magi R, Strawbridge R, Pers TH, Fischer K, Justice AE, Workalemahu T, Wu JM, et al. (2015). New genetic loci link adipose and insulin biology to body fat distribution. Nature 518: 187-196.


GWAS Anthropometric 2014 Height Summary Statistics

If you use these Height data, please cite: Wood AR, Esko T, Yang J, Vedantam S, Pers TH, Gustafsson S et al. (2014). Defining the role of common variation in the genomic and biological architecture of adult human height. Nature Genetics 11:1173-86.


Variability in BMI and Height Summary Statistics

If you use these Body Mass Index or Height data, please cite: Yang J, Loos RJ, Powell JE, Medland SE, Speliotes EK, Chasman DI, Rose LM, Thorleifsson G, Steinthorsdottir V, Mägi R, et al. (2012). FTO genotype is associated with phenotypic variability of body mass index. Nature 490:267-272.


Sex Stratified Anthropometrics Summary Statistics

If you use these data, please cite: Randall JC, Winkler TW, Kutalik Z, Berndt SI, Jackson AU, Monda KL, Kilpeläinen TO, Esko T, Mägi R, Li S, et al. (2013). Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits. PLoS Genet 9: e1003500.


Extremes of Anthropometric Traits Summary Statistics

If you use these data, please cite: Berndt SI, Gustafsson S, Mägi R, Ganna A, Wheeler E, Feitosa MF, Justice AE, Monda KL, Croteau-Chonka DC, Day FR, et al. (2013). Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. Nature Genetics 45:501-512.


GIANT Consortium 2010 GWAS Summary Statistics

Download GIANT Consortium 2010 GWAS Summary Statistics Data File Description


GWAS 2010 BMI Summary Statistics

If you use these Body Mass Index data, please cite: Speliotes, E.K., Willer, C.J., Berndt, S.I., Monda, K.L., Thorleifsson, G., Jackson, A.U., Allen, H.L., Lindgren, C.M., Luan, J., Magi, R., et al. (2010). Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index. Nat Genet 42, 937-948.


GWAS 2010 Height Summary Statistics

If you use these Height data, please cite: Lango Allen, H., Estrada, K., Lettre, G., Berndt, S.I., Weedon, M.N., Rivadeneira, F., Willer, C.J., Jackson, A.U., Vedantam, S., Raychaudhuri, S., et al. (2010). Hundreds of variants clustered in genomic loci and biological pathways affect human height. Nature 467, 832-838.


GWAS 2010 WHRadjBMI Summary Statistics

If you use these waist-hip ratio adjusted for BMI data, please cite: Heid, I.M., Jackson, A.U., Randall, J.C., Winkler, T.W., Qi, L., Steinthorsdottir, V., Thorleifsson, G., Zillikens, M.C., Speliotes, E.K., Magi, R., et al. (2010). Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution. Nat Genet 42, 949-960.

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