Table 2.

Association study of the candidate genes located on four chicken chromosomes (GGA9, GGA14, GGA18, GGAZ) and three immune traits [immune response to keyhole limpet hemocyanin (KLH), natural antibodies for lipopolysaccharide (LPS) and lipoteichoic acid (LTA)], based on two statistical approaches: a random mixed model (RMM) showing additive effects of significant SNPs and a nonparametric CAR score (CAR)

Trait	Gene ID	Gene name	Chromosome	Model
				RMM	CAR
KLH	EPHB1	EPH receptor B1	9	NS	+
	KLHL6	Kelch‐like 6 (Drosophila)	9	NS	+
	PROCR	Protein C receptor, endothelial	9	NS	+
	CARD11	Caspase recruitment domain family, member 11	14	0.1028 0.0821	+
	IL9R	Interleukin 9 receptor	14	0.1025	+
	MAPK8IP3	Mitogen‐activated protein kinase 8 interacting protein 3	14	0.0932 0.1315	+
	PDGFA	Platelet‐derived growth factor alpha polypeptide	14	0.0868	+
	PRKCB	Protein kinase C, beta	14	0.0708	+
	TRAF7	TNF receptor‐associated factor 7, E3 ubiquitin protein ligase	14	NS	+
	FOXJ1	Forkhead box J1	18	NS	+
	JMJD6	Jumonji domain containing 6	18	NS	+
	MAP2K4	Mitogen‐activated protein kinase kinase 4	18	NS	+
	ITGB4	Integrin, beta 4	18	0.1197 0.0902	+
	UNC13D	Unc‐13 homolog D (C. elegans)	18	0.0841	+
LPS	EPHB1	EPH receptor B1	9	0.0313 0.0380 0.0373	+
	PROCR	Protein C receptor, endothelial	9	0.0439	+
	KLHL6	Kelch‐like 6 (Drosophila)	9	NS	+
	IL9R	Interleukin 9 receptor	14	NS	+
	MAPK8IP3	Mitogen‐activated protein kinase 8 interacting protein 3	14	NS	+
	PRKCB	Protein kinase C, beta	14	NS	+
	SOCS1	Suppressor of cytokine signaling 1	14	NS	+
	CRLF3	Cytokine receptor‐like factor 3	18	0.0366	+
	FOXJ1	Forkhead box J1	18	0.0378	+
	PTGER4	Prostaglandin E receptor 4 (subtype EP4)	Z	0.0630	+
LTA	KLHL6	Kelch‐like 6 (Drosophila)	9	NS	+
	IL9R	Interleukin 9 receptor	14	0.0591	+
	MAPK8IP3	Mitogen‐activated protein kinase 8 interacting protein 3	14	0.0444 0.0597	+
	PRKCB	Protein kinase C, beta	14	0.0467	+
	MAP2K3	Mitogen‐activated protein kinase kinase 3	14	0.0493	+
	CARD11	Caspase recruitment domain family, member 11	14	NS	+
	TNFRSF13B	Tumor necrosis factor receptor superfamily, member 13B	14	NS	+
	FOXJ1	Forkhead box J1	18	0.0413	+
	ITGB4	Integrin, beta 4	18	0.0595	+
	JMJD6	Jumonji domain containing 6	18	0.0414	+
	ITGB4	Integrin, beta 4	18	NS	+
	PTGER4	Prostaglandin E receptor 4 (subtype EP4)	Z	0.0484	+

+, gene selected with CAR score model.