Authors:
Sohail, Mashaal, Maier, Robert M., Ganna, Andrea, Bloemendal, Alex, Martin, Alicia R., Turchin, Michael C., Chang, Charleston W. K., Hirschhorn, Joel, Daly, Mark J., Patterson, Nick, Neale, Benjamin, Mathieson, Iain, Reich, David, Sunyaev, Shamil R.
Abstract:
UK Biobank custom height association statistics on ~700k genotyped SNPsThe zip file contains six files: (1) ukb_cal_v2_height_allancestry_10pcs_assoc_linear.tsv (2) ukb_cal_v2_height_allancestry_nopcs_assoc_linear.tsv (3) ukb_cal_v2_height_britishancestry_10pcs_assoc_linear.tsv (4) ukb_cal_v2_height_britishancestry_nopcs_assoc_linear.tsv (5) ukb_cal_v2_height_sibs_perm_qfam.tsv (6) ukb_cal_v2_height_wbsibs_perm_qfam.tsv (1) - (4) are height GWAS estimates on all samples / white British samples using 10 PCs as covariates or no PCs as covariates. (...)
UK Biobank custom height association statistics on ~700k genotyped SNPsThe zip file contains six files: (1) ukb_cal_v2_height_allancestry_10pcs_assoc_linear.tsv (2) ukb_cal_v2_height_allancestry_nopcs_assoc_linear.tsv (3) ukb_cal_v2_height_britishancestry_10pcs_assoc_linear.tsv (4) ukb_cal_v2_height_britishancestry_nopcs_assoc_linear.tsv (5) ukb_cal_v2_height_sibs_perm_qfam.tsv (6) ukb_cal_v2_height_wbsibs_perm_qfam.tsv (1) - (4) are height GWAS estimates on all samples / white British samples using 10 PCs as covariates or no PCs as covariates. Sex was included as covariate in all analyses. (3) is equivalent to the UK Biobank height GWAS from the Neale lab. The remaining small differences can be explained by genotype differences in the UK Biobank imputed data and genotyped data. (5) and (6) are family based estimates from 20166 sibling pairs of any ancestry (5) and 17358 sibling pairs where both siblings are of white British ancestry (6) in the UK Biobank. Pairs of samples with IBS0 > 0.0018 and Kinship coefficient > 0.185 were identified as sibling pairs. For the analyses in Sohail, Maier et al., only the subset of ~300,000 SNPs with SDS scores was used. For a description of the columns in files (1)-(4) please see the PLINK documentation for the ‘--linear’ command. Column “A2” has been added and denotes the non-effect allele. For a description of the columns in files (5) and (6) please see the PLINK documentation for the ‘--qfam’ command. Column “A2” has been added and denotes the non-effect allele. “EMP1” and “NP” refer to permutation p-value and number of permutations, respectively. Please note: These data are derived from the UK Biobank Resource under Application Number 18597.sohail_maier_2018.zip
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