“nominally significant”

A P value of <0.05 was considered nominally significant, and to account for multiple comparisons, we applied the Bonferroni correction, establishing a threshold of <0.00357 (0.05/14) to indicate study-wide significance for each separate analysis.

ECM1 had consistent associations with genetically predicted SCAD across both data sets, which were statistically significant, whereas SPON1 was only significant in UKB, despite consistency in direction of association, which was nominally significant before correction for multiple testing.

The other nominally significant interactions included CD2AP (rs9296559) x PICALM (rs3851179), CLU (rs11136000) x PICALM (rs3851179), and CLU (rs11136000) x MS4A6A (rs610932).

To further assess the relevance of driver meQTLs to cancer risk, we used them to predict breast cancer status alongside clinical covariates using the approach described by Elgart et al . 18 We first performed feature selection by LASSO on nominally significant driver meQTLs and available clinical factors (age, ancestry as represented by the top 10 genotype-derived PCs); LASSO regularization removed ancestry and some meQTLs.

We also carried out rare variant TDTs of intronic and intergenic variants with similar results, finding only nominally significant associations attributable to intergenic, low-frequency variants (MAFs ranging between 0.5 and 1%).

Consequently, a total of 19 SNPs remained in the subsequent analysis In individual SNP association analysis, ADRA2A rs553668, DRD2 rs1124491 and SLC6A4 rs6354 were nominally significant at the uncorrected 0.05 significance level with adjustment for age and gender.

We also identified several cancer pairs for which the genetic correlations were nominally significant.

A single-allele p-value of <0.05 was considered to be nominally significant and included in the PARIS analysis.

In addition, the intersect between the nominally significant differentially expressed genes in both the striatal RNA-Seq and the LCM striatal neurone RNA-Seq data sets are presented for comparison in Supplementary Table 2 .

In that study, OCA2, KITLG, SLC24A4, and TPCN2, which are all associated with blond hair or blue eyes, did not show a nominally significant association with the risk of CM or BCC.

Premutation expansions in ATXN1 showed a nominally significant association with ALS susceptibility, while pathogenic expansions in NIPA1 displayed a nominally significant association with ALS survival.

Gene prioritization after colocalization We selected all genes from the colocalization study for which the posterior probability was >0.5 and that had a nominally significant p -value \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$\le$$\end{document} ≤ 0.05.

Enrichment analysis We performed enrichment analysis by submitting the full list of nominally significant DEGs to the KOBAS algorithm 37 .

One limitation of GSEA is that overrepresentation of genes with nominally significant associations from within a specific pathway may not be driven by true association.

In an APOE-ε 4 conditional analysis, only rs283815 remains nominally significant (Table 1 ).

A two-sided P < 0.05 was considered as nominally significant.

Raw p-values were adjusted for multiple comparisons using the Benjamini-Hochberg method separately for each matrix; we considered raw p-values <0.05 as nominally significant, and adjusted p-values (q) < 0.05 as statistically significant.

63 A similar approach on 148,508 individuals, of whom 22,080 had at least one parent with AD/dementia or AD diagnosis themselves, found a nominally significant enrichment of rare ABCA7 variants in disease, although an OR was not reported. 64 Power in this cohort to find significance may have been decreased by the proxy approach in which not all 22,080 AD‐classified individuals actually developed AD, carried risk variants or may have had parents with other types of dementia.

Among the 29 lipids that showed nominally significant associations, only four showed an inverse association.

A heatmap of the 100 top nominally significant differentially expressed genes (DEG) demonstrated visible differences between adipocytes in 3% vs. 5% gels ( Figure 3c , Table 1S).

Although this is only nominally significant, it is notable that these genes are in the 3rd percentile of schizophrenia associations genome-wide within UK Biobank.

We found nominally significant global genetic correlations among six trait pairs identified by both LDSC [ 13 ] and ρ-HESS [ 20 ] (FEV 1 and FVC with PUD, GORD, and IBS, Fig. 2 and Additional file 1: Table S2 ).

The significance threshold was set to 0.0025 and p -values below 0.0025 were considered statistically significant, while p-values between 0.0025 and 0.050 were considered nominally significant.

After Bonferroni correction for multiple testing, p-values less than 0.0125 were considered nominally significant.

Neither of these effects reached study-wide significance after correction for multiple comparisons using a permutation test. Additionally, we found nominally significant associations between several supplementary self-report measures and AVPR1A rs1042615 or OXTR rs237889 (see Supplementary Table 2 for the full results).