Genetic and functional evaluation of the role of CXCR1 and CXCR2 in susceptibility to visceral leishmaniasis in north-east India

Table 5 Haplotype association analyses between CXCR1/CXCR2 and VL

Haplo	Family Analysis	Freq	CXCR2_rs4674259	CXCR1_rs2234671	CXCR1_rs3138060
T.G	TRANSMIT	0.41	χ² = 4.61; 1df; P = 0.032
_ G.C	TRANSMIT	0.83		χ² = 10.27; 1df; P = 0.001
T.G.C	TRANSMIT	0.40	χ² = 5.98; 1df; P = 0.014
Haplo	Case-Control	Freq	CXCR2_rs4674259	CXCR1_rs2234671	CXCR1_rs3138060
T.G	PLINK	0.43	χ² = 4.34; 1df; P = 0.037
_ G.C	PLINK	0.83		χ² = 1.29; 1df; P = 0.256
T.G.C	PLINK	0.42	χ² = 4.99; 1df; P = 0.025

Chi-squared (χ²), degrees of freedom (df) and P-values for risk associated (over-transmitted) haplotypes for the 3 SNPs as determined in TRANSMIT for the family-based primary sample, and in PLINK for the case-control replication sample. Bold indicates significant associations at nominal P ≤ 0.05. Haplotypes are called on the negative strand across the 3 SNPs.