Pathway-Wide Genetic Risks in Chlamydial Infections Overlap between Tissue Tropisms: A Genome-Wide Association Scan

Table 1

Index SNPs (, at least one supporting SNP in LD with ) for candidate associated regions. The index SNPs in the five genomic regions containing SNPs with . Indexes chosen by the lowest in the region. SNP positions are relative to the Human Assembly 3GRCh37.p13 reference. All index SNPs were imputed.

Region	Number of SNPs	CHR	Range	Index RSID	Index POS	Alleles	Index frequency		OR	Gene	Nearby genes
A	1	4		rs6821248	104158360	G,A	25.3%	8.76E − 07	0.79	—	CENPE
B	33	7	34560375–34666861	rs720756	34586240	T,C	4.7%	2.89E − 07	0.60	NPSR1-AS1	NPSR1
C	12	10	53896500–53889255	rs12259288	53889255	A,G	33.3%	5.75E − 07	0.81	PRKG1	—
D	1	16		rs77175455	29615810	A,T	62.0%	7.43E − 07	0.75	—	SLC7A5P1
E	1	16		rs79741827	56733116	T,C	4.4%	9.47E − 07	0.60	—	MT1X