Genetic variants of TLR4, including the novel variant, rs5030719, and related genes are associated with susceptibility to clinical malaria in African children

Table 1 Single nucleotide polymorphisms (SNPs) in children statistically associated with the incidence of clinical malaria using a Poisson model (q < 0.05)

Gene	rs value	Major	Minor	Minor freq	p-value	q-value	OR
ABO	rs8176743	G	A*	0.106061	0.0005	0.003333	0.628 (0.511–0.773)
ABO	rs8176746	C	A*	0.10678	0.0005	0.003333	0.618 (0.503–0.758)
ABO	rs8176747	G	C*	0.104452	0.0005	0.003333	0.600 (0.488–0.739)
CD14	rs5744455	C	T*	0.02632	0.011	0.041739	0.591 (0.394–0.886)
CD36	rs1049654	A	C*	0.355932	0.0005	0.003333	0.643 (0.552–0.750)
CD36	rs3173798	T*	C	0.312925	0.012	0.041739	1.25 (1.05–1.48)
CR1	rs10499885	T*	C	0.355219	0.003	0.017143	1.26 (1.08–1.48)
GCLM	rs41303970	C*	T	0.30566	0.0005	0.003333	1.49 (1.25–1.78)
HP	rs5469	T	A*	0.425676	0.01	0.041739	0.814 (0.696–0.952)
ICAM1	rs5490	A	C*	0.267918	0.0005	0.003333	0.689 (0.579–0.820)
ICAM1	rs5491	A	T*	0.319113	0.0005	0.003333	0.687 (0.584–0.807)
ICAM1	rs5498	A*	G	0.115658	0.0005	0.003333	1.79 (1.32–2.42)
IFNG	rs2430561	T	A*	0.198606	0.011	0.041739	0.803 (0.678–0.951)
IL13	rs1800925	C*	T	0.337979	0.005	0.025	1.29 (1.08–1.55)
IL1A	rs17561	G*	T	0.146127	0.002	0.012308	1.47 (1.15–1.88)
IL1B	rs1143634	C*	T	0.117747	0.005	0.025	1.51 (1.13–2.02)
IL4R	rs1805010	G	A*	0.429078	0.0005	0.003333	0.675 (0.574–0.794)
IL4R	rs1805015	T*	C	0.395904	0.008	0.035556	1.25 (1.06–1.48)
IL4	rs4889	G	del*	0.43696	0.007	0.032941	0.713 (0.558–0.912)
MBL	rs11003123	A	G*	0.49481	0.0005	0.003333	0.746 (0.640–0.869)
MBL	rs11003124	G	T*	0.491409	0.0005	0.003333	0.753 (0.649–0.875)
TLR2	rs3804099	C*	T	0.271277	0.012	0.041739	1.29 (1.06–1.57)
TLR4	rs5030719	G	T*	0.024648	0.0005	0.003333	0.465 (0.342–0.633)

In this table, ‘rs values’ are as defined in the NCBI dbSNP repository, ‘minor frequency’ denotes the minor allele frequencies of each SNP from the genotypes analysed in this study, p-values are the output of Poisson analysis, and q-values are the p-values adjusted for multiple testing using a false detection rate (FDR) model. OR denotes the odds ratio of clinical malaria for the minor allele compared to the major allele; the subsequent columns of lower CI and upper_CI, respectively denote the lower and upper boundaries of the OR 95% confidence interval. In the columns defining the reference and alternate alleles, the genotype conferring risk to malarial incidence is marked with an asterisk (*) as inferred from the OR and its confidence interval

ISSN: 1475-2875