Table 1.

DA.ACI(Cia25) congenics have reduced expression levels of genes associated with inflammation and joint destruction, compared with DA.

Gene	Gene Name	Accession number	DA mean	Cia25* mean	Fold difference¶	P-value#
Chemokines and receptors
Ccl2	c-chemokine ligand 2	24770	3340.50	480.11	−6.96	0.006
Ccl6	c-chemokine ligand 6	287910	772.73	397.41	−1.94	0.0002
Ccl7	c-chemokine ligand 7	287561	4349.99	281.89	−15.43	0.005
Ccr5	c-chemokine receptor 5	117029	3784.07	524.28	−7.22	0.002
Cxcl10	c-x-c chemokine ligand 10	245920	453.32	14.76	−30.71	0.006
Cxcl11	c-x-c chemokine ligand 11	305236	1931.04	41.79	−46.21	0.005
Cxcl13	c-x-c chemokine ligand 13	498335	4567.64	938.37	−4.87	0.001
Ccl21b	c-chemokine ligand 21b	298006	2053.85	881.95	−2.33	0.005
Cytokines and receptors
IL-1β	interleukin-1 beta	24494	1411.54	190.77	−7.40	0.004
IL-6	interleukin-6	24498	827.06	12.28	−67.33	0.06§
IL-13ra2	interleukin 13 receptor, alpha 2	171060	411.45	86.26	−4.77	0.005
IL-17ra	interleukin-17 receptor a	312679	340.32	113.77	−2.99	0.004
Ltb	lymphotoxin beta	361795	229.64	68.75	−3.34	0.01
TLR signaling
Tlr2	toll-like receptor 2	310553	2169.30	656.32	−3.31	0.0006
Tlr6	toll-like receptor 6	305353	652.13	367.79	−1.77	0.0003
Tlr7	toll-like receptor 7	317468	188.78	57.09	−3.31	0.0004
TLR and IL-1r signaling
Irak4	interleukin-1 receptor-associated kinase 4	300177	80.00	40.47	−1.98	0.006
TIFA	TRAF-interacting protein with forkhead-associated domain	310877	905.22	321.12	−2.82	0.00002
Proteases
Mmp3	matrix metallopeptidase 3 (stromelysin-1)	171045	21189.32	1654.38	−12.81	0.002
Mmp14	matrix metallopeptidase 14 (Mt1-mmp)	81707	8999.14	2873.16	−3.13	0.003
Ctsc	Cathepsin C	25423	1196.84	442.37	−2.71	0.002
Ctsd	Cathepsin D	171293	5356.43	3095.15	−1.73	0.0008
Ctse	Cathepsin E	25424	349.96	130.51	−2.68	0.0001

^*Cia25=DA.ACI(Cia25);

^¶Fold difference=Cia25 mean divided by DA mean;

^#Based on t-test;

^§QPCR IL-6 p-value=0.0002, with a 43.6-fold down-regulation in DA.ACI(Cia25).