CPAG: software for leveraging pleiotropy in GWAS to reveal similarity between human traits links plasma fatty acids and intestinal inflammation

Table 1 SNPs associated with both early onset MI and Salmonella-induced pyroptosis

			Early onset MI		Salmonella-induced pyroptosis
SNP	Chromosome	Gene	P value	Risk allele	P value	High pyroptosis allele	Concordant risk
rs6725887	2	WDR12	1.00E-08	C	0.0088	C	Yes
rs9305545, rs9982601	21	-	6.00E-11	T	0.0036	G (T for rs9305545)	Yes
rs12526453, rs2327621	6	PHACTR1	1.00E-09	C	0.005	G (? for rs12526453)	?
Summary			Observed	Expected	Enrichment	P value	P value (Bonferroni)
			3	0.08	37.5	5.9 × 10⁻⁵	0.003

P values for early onset MI association are from the NHGRI GWAS Catalog [1], while p values for pyroptosis were from [37]. Two SNPs are given in the same line where the lowest p value for early-onset MI and Salmonella-induced pyroptosis in the LD region are not the same SNP. The concordance of risk alleles for the two SNPs was determined by examining the direction of association for the early-onset MI SNP in the pyroptosis dataset. SNP rs12526453 shows no association with pyroptosis (despite rs2327621 showing an association), so the direction of effect is undetermined. P value for the significance of overlap was calculated with Fisher’s exact test

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