iLOCi: a SNP interaction prioritization technique for detecting epistasis in genome-wide association studies

BMC Genomics

Table 4 The disease association of iLOCi selected genes from gene-only SNP analyses

Disease	# iLOCi genes in top 1000 SNP pairs	Reported in WTCCC single SNP analyses		Reported in HuGE Navigator database
		# Analyzed genes (# SNPs)	# iLOCi genes	# Analyzed genes (# SNPs)	# iLOCi genes
BD	654	42 (1757)	8	665 (16598)	52
CAD	710	29 (2097)	3	735 (11564)	37
CD	279	54 (1651)	4	531 (7181)	10
HT	595	32 (3164)	19	1240 (22004)	64
RA	677	34 (822)	4	503 (5902)	19
T1D	687	39 (1153)	5	512 (6924)	29
T2D	486	29 (1289)	5	2456 (41244)	110

The table displays the number of previously reported disease-associated genes which were found in all analyzed genes and in the set of genes involved in top 1000 interaction pairs. The reported disease genes are shown for both the genes associated with disease SNPs from WTCCC paper [3] and the ones reported in HuGE Navigator database [33].

ISSN: 1471-2164