Minimal dataset for the manuscript "Better together against genetic heterogeneity: a sex-combined joint main and interaction analysis of 290 quantitative traits in the UK Biobank".

<p>Dataset "lin2024-sex_combined_interaction-association_signifincant_in_one_or_more_tests-summary.txt" is a minimal dataset to reproduce the figures and tables in the manuscript "Better together against genetic heterogeneity: a sex-combined joint main and interaction analysis of 290 quantitative traits in the UK Biobank".&nbsp;</p> <p><br>To generate this dataset, see "https://github.com/BoxiLin/t2meta" Steps 0, 1.</p> <p>This dataset is the input for Steps 2, 3, 4, 5 to generate Figures 1-3 and Table 2-3.</p> <p>&nbsp;</p> <p>##### Column information ########################</p> <p>The following columns are annotations on each variant in the GWAS, calculated across the analysis subset of 361,194 samples by the Neale lab:</p> <p>code: Phenotype identifier in the form of "[UKB Data field]_raw"<br>variant: Unique variant identifier in the form "chr:pos:ref:alt", where "ref" is aligned to the forward strand.<br>chr: Chromosome of the variant.<br>pos: Position of the variant in GRCh37 coordinates.<br>rsid: rs ID<br>ref: Reference allele on the forward strand.<br>alt: Alternate allele (not necessarily minor allele).<br>p_hwe: Hardy-Weinberg p-value.<br>info: Imputation INFO score as provided by UK Biobank.</p> <p>&nbsp;</p> <p>The following columns are sex-stratified test statistics calculated by the Neale lab:</p> <p>minor_allele.x: Minor allele (AF &lt; 0.5) in the female GWAS&nbsp;<br>minor_AF.x: Minor allele frequency in the female GWAS&nbsp;<br>beta.x: Estimated effect size of alt allele in the female GWAS&nbsp;<br>se.x: Estimated standard error of beta in the female GWAS<br>tstat.x: t-statistic of beta estimate (= beta/se) in the female GWAS&nbsp;<br>pval.x: p-value of beta significance test in the female GWAS&nbsp;</p> <p>minor_allele.y: Minor allele (AF &lt; 0.5) in the male GWAS&nbsp;<br>minor_AF.y: Minor allele frequency in the male GWAS&nbsp;<br>beta.y: Estimated effect size of alt allele in the male GWAS&nbsp;<br>se.y: Estimated standard error of beta in the male GWAS&nbsp;<br>tstat.y: t-statistic of beta estimate (= beta/se) in the male GWAS&nbsp;<br>pval.y: p-value of beta significance test in the male GWAS&nbsp;</p> <p>&nbsp;</p> <p><br>The following columns are sex-combined test statistics calculated in our analysis:</p> <p>T.I: test statsitic for interaction effect-only&nbsp;<br>p.T.I: &nbsp;p-value of the interaction effect-only test&nbsp;<br>TSG.L: &nbsp;test statsitic for inverse variance weighted meta-analysis<br>p.TSG.L: p-value of the inverse variance weighted meta-analysis<br>TSG.Q: test statsitic for the omnibus meta-analysis<br>p.TSG.Q: p-value for the omnibus meta-analysis</p>