GIANT consortium data files

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= [[Main Page|GIANT consortium]] GWAS metadata will be available here for download. =
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= [[Main Page|GIANT consortium]] GWAS metadata is available here for download. =
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We are releasing the summary data from our 2010 meta-analyses of 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. A manuscript describing the rationale for releasing association data but not frequency data is in preparation.
+
We are releasing the summary data from our 2010 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. A manuscript describing the rationale for releasing association data but not frequency data is in preparation.
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== [[media:GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt‎|Height]] (82 MB; 2,469,636 lines) ==
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'''Data file description:'''
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If you use these height data, please cite:
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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.
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[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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;MarkerName  :The [http://www.ncbi.nlm.nih.gov/SNP/ dbSNP] name of the genetic marker
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;Allele1      :The first allele, by definition the trait-increasing allele (hg18 + strand)
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;Allele2      :The second allele (hg18 + strand)
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;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
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;N            :Number of observations
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== [[media:GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt|BMI]] (79 MB; 2,471,517 lines) ==
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== BMI ([[Media:GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt.gz|download GZIP]]) ==
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<tt>MD5 ([[media:GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt|GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt]] -- 79 MB; 2,471,517 lines) = 38c836542807a3830101bcf48bb34472</tt>
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If you use these BMI data, please cite:
+
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.
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[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.
 
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== [[media:GIANT WHRadjBMI Heid2010 publicrelease HapMapCeuFreq.txt|WHRadjBMI]] (75 MB; 2,483,326 lines) ==
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== Height ([[Media:GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt.gz ‎|download GZIP]]) ==
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<tt>MD5 ([[media:GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt|GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt]] -- 82 MB; 2,469,636 lines) = b51b4c4ff1f03bd33c4b2dfd6b10cb82</tt>
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If you use these waist-hip ratio adjusted for BMI data, please cite:
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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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[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.
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== WHRadjBMI ([[Media:GIANT WHRadjBMI Heid2010 publicrelease HapMapCeuFreq.txt.gz |download GZIP]]) ==
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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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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.

Revision as of 17:21, 1 July 2011

Contents

GIANT consortium GWAS metadata is available here for download.

We are releasing the summary data from our 2010 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. A manuscript describing the rationale for releasing association data but not frequency data is in preparation.


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.

MarkerName  
The 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 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 (download GZIP)

MD5 (GIANT_BMI_Speliotes2010_publicrelease_HapMapCeuFreq.txt -- 79 MB; 2,471,517 lines) = 38c836542807a3830101bcf48bb34472

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.


Height (download GZIP)

MD5 (GIANT_HEIGHT_LangoAllen2010_publicrelease_HapMapCeuFreq.txt -- 82 MB; 2,469,636 lines) = b51b4c4ff1f03bd33c4b2dfd6b10cb82

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.


WHRadjBMI (download GZIP)

MD5 (GIANT_WHRadjBMI_Heid2010_publicrelease_HapMapCeuFreq.txt -- 75 MB; 2,483,326 lines) = 8f7e2ca61c33a120db9e7bfe51e3c053

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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