“nominally significant”

Within LYN-mutant cases, an exploratory domain analysis indicated that distributions differed by CNS status (omnibus χ2 p ≈ 0.014); a one-versus-rest signal at the SH4/Unique N-terminus was nominally significant and borderline after false discovery rate (FDR) (unadjusted p ≈ 0.010; q ≈ 0.052; small in-domain n = 3).

Differentially Expressed Genes (DEGs) were identified by edgeR3.24.1 42 and reported after Benjamini-Hochberg false discovery rate (FDR) (5%) correction (14, 16) or as nominally significant DEGs ( p < 0.01).

Carriers of the C/T of rs3804099 and rs3804100 of TLR2 had a nominally significant association with decreased HCC risk (OR 0.493, 95% CI 0.331 - 0.736; OR 0.509, 95% CI 0.342 - 0.759) by age and sex adjustment ( P < 0.01) (see Table 3 ) compared with T/T carriers.

Results Enrichment analysis revealed 427 DMRs with nominally significant differences in methylation between preterm and term placentas ( p < 0.01) and 21 statistically significant DMRs after multiple comparison correction (FDR p < 0.05), of which 62% were hypo-methylated in preterm placentas vs term placentas.

Silencing involves both daf-16 –dependent and –independent routes Of 35 nominally significant ( P <0.01) transcriptional differences between age-1(mg44) F2 and N2DRM adults, 25 were completely reversed (to within 20% of the N2DRM level, or over-reverted) by mutations inactivating daf-16 ; a further 9 genes showed partial reversion, while two, daf-2 and pmk-2 , did not revert at all.

For each variable, we report Spearman’s correlation coefficient and its p-value, and odds ratio and p-value from Fisher’s test for enrichment of nominally significant results (permutation-corrected p-value<0.01) between GxE expression quantitative trait locus (eQTL) testing using transcriptional signatures and observed data.

We then threshold this z to restrict to nominally significant voxels in which P < 0.01.

A meta-analysis of the respective results for RS-I, RS-II and GOOD revealed that the height association of rs749052 remained nominally significant ( P = 0.01).

When examining POAG odds across UA PRS tertiles, no clear associations were observed in either cohort, except for one nominally significant finding in LifeLines after excluding possible cases, where the middle tertile showed higher odds of POAG (OR = 2.21, 95% CI = 1.18–4.13, P = 0.01; Supplementary Table S5 ).

The prevalence of FMR1 premutation carriers in the parents of the SSC cohort compared to the prevalence observed in samples from the MRGB ( Figure 3 C) were significantly higher for mothers ( p -value = 4.057 × 10 −5 ) and nominally significant for fathers ( p -value = 0.010).

We observed nominally significant associations between FUT2 expression and the concentration of three HMOs: 2′-fucosyllactose (beta = 0.12, p = 0.01; Figure S22 ), lacto-N-fucopentaose (LNFP)-II (beta = −0.12, p = 0.03; Figure S22 ), and lacto-N-hexaose (beta = 0.14, p = 0.04; Figure S22 ).

Four of the established BP SNPs displayed a nominally significant ( p < 0.01) association with SBP at 1 or more time points, and were investigated further for potential effect mediators.

Meta-analysis of IVGTT-derived quantitative traits showed a nominally significant association between the variant and reduced beta-cell responsiveness to glucose ( β = −0.1 mmol · kg −1 · min −1 ; 95% CI: −0.200.20 – −0.024; P = 0.01) assuming a dominant model of inheritance, but failed to replicate a previously reported association with area under the curve (AUC) for insulin.

The signal we identified on COL4A2 for females (rs1927355), was similarly replicated in Geisinger MyCode, in which it was genome-wide significant in the female-specific GWAS (Beta G ± SE = 0.08 ± 0.01, P = 9.25 × 10 −10 ), and nominally significant in the male-specific GWAS (Beta G ± SE = 0.05 ± 0.02, P = 0.01).

An analysis of a haplotype incorporating these SNPs showed a nominally significant interaction term (p = .01).

Of the 764 SNPs, 98 of them were nominally significant from our data using a threshold of P < 0.01, whereas one would expect only 7.64 to be significant under the null hypothesis ( P = 7.4 × 10 –74 ).

Testing for DNA methylation association with SMM in 50 discordant MZ twins revealed 36 081 nominally significant results, of which the top-ranked 134 signals ( P < .01 and R repeated > 0.40) were subjected to replication in the sample of 1196 individuals.

Finally, we restricted our associations to genes where there was at least a nominally significant p-value (p < 0.01) for a minimum of two out of five methods tested (in addition to a Bonferroni-corrected significant ACAT-O CON p-value) ( Figure 1 ).

The transcriptomic effects of individual NDD genes cluster by cell type: the strongest NDD gene correlations are in mature iGLUTs; that is, all nominally significant ( P < 0.01) log 2 fold change (FC) DEGs are most highly correlated with each other and least correlated with the other cell types, whether relative to all scramble control cells (Fig. 1e(i),(ii) and Supplementary Fig. 7c(ii) ) or to random subsets of scramble control cells (Supplementary Fig. 8a,b ).

However, two SNPs showed a nominally significant association with the risk of being a ‘weight gainer’ ( PYY SNP rs1859223, OR = 0.91 per minor allele, P = 0.01; CCK SNP rs11571842, OR = 1.06 per minor allele, P = 0.03) ( Table S3 ).

While standard differential expression analysis comparing control and treated rats identified 0 genes with adjusted p value < 0.05, a targeted approach focusing on the members of the CP/CPPS-proximal interaction network identified 5 genes with a nominally significant p value < 0.01.

Additional proteins of interest that were nominally significant include glutathione-S transferase P ( Figure 4i group effect; P <0.01), tyrosine protein phosphatase non-receptor 11 (SHP2, Figure 4j , group effect; P <0.01) higher in ODS and brain derived neurotrophic factor (BDNF; Figure 4k group × time effect, P <0.05) and Peptide YY (PYY Figure 4l , group × time, P <0.01).

However, there was a nominally significant association with later age at last birth when data were controlled for age and BMI ( P = 0.01).

We assessed our 5 week dataset in comparison with the previously published 4 week old cohort, and found a portion of the nominally significant genes (nominal p-value < 0.01) that overlapped with the previously published microarray ( Figure 3—figure supplement 3A ).

As an exploratory analysis, the combined analysis was applied on the SNPs that were nominally significant (p < 0.01) in both the discovery and validation analysis.