Incorporating biological knowledge in the search for gene × gene interaction in genome-wide association studies

BMC Proceedings

Table 3 The top ten pair-wise interaction results among SNPs near genes in the "protein complex assembly" gene collection from a logistic regression model

SNP 1	Chr	Closet gene	SNP 2	Chr	Closet gene	Interaction p-value
rs12969200	18	DSG1	rs12458537	18	MALT1	1.05 × 10^-7
rs215590	16	MYH11	rs9391858^b	6	C6orf10	1.86 × 10^-6
rs13035837	2	DGKD	rs2672221	11	NUP98	3.27 × 10^-6
rs335524	1	CENPF	rs215590	16	MYH11	1.31 × 10^-5
rs10834677	11	ART5	rs17286488	16	MYH11	2.21 × 10^-5
rs1553920	1	PIK3C2B	rs6888329	5	ADRB2	5.38 × 10^-5
rs9311951	3	MAGI1	rs2191498	7	CAV2	5.64 × 10^-5
rs774265	7	SKAP2	rs1412243	9	APBA1	8.64 × 10^-5
rs10739575	9	PSMD5	rs1805061	14	SLC7A7	9.88 × 10^-5

^aSNPs were filtered by main effects p-values = 0.20 and binned by r² > 0.5, for a total of 572 SNPs
^bSNPs from the adjustment model

ISSN: 1753-6561