Table 4.

Canonical pathways enriched for genes differentially expressed between Lewis and WKY macrophages, with EASE score values less than 0.01

Pathway database	Pathway	Genes (n)	p-value	%	Differentially expressed genes
Basal macrophages
KEGG	rno04144:Endocytosis	22	6.89E-04	2.9	Igf1r, Vps37c, Pip5k1b, Tfrc, Ap2m1, Git2, Cxcr4, Kit,Fam125a,Psd3, Grk6, Chmp1b, Pld1, RT1-CE10, Itch, Met, Agap3, Ret, Eps15, Erbb3, Ldlr, Rab31
KEGG	rno04640:Hematopoietic cell lineage	12	1.25E-03	1.6	Anpep, Tfrc, Cd55, Kit, Cd14, Itga1, Csf1, H2-Ea, Cd24, Cd44, Cd8b, Cd4
KEGG	rno04810:Regulation of actin cytoskeleton	20	5.99E-03	2.6	Itgal, Pip5k1b, Myh10, Baiap2, Ssh1, Arpc1b, Arpc3, Pxn, Enah, Cd14, Pdgfc, Itga1, Pak6, Slc9a1, Pik3cd, Pik3cg, Scin, Itgb8, Rac2, Arhgef12
KEGG	rno04670:Leukocyte transendothelial migration	13	9.65E-03	1.7	Itgal, Sipa1, Pxn, Cxcr4, Rassf5, Ptk2b, Ocln, Pik3cd, Pik3cg, Rac2, Icam1, Esam, Cybb
KEGG	rno04666:Fc gamma R-mediated phagocytosis	11	9.90E-03	1.4	Pip5k1b, Arpc1b, Arpc3, Pla2g4a, Fcgr2b III Fcgr3 III Fcgr3-rs, Prkcd, Pld1, Pik3cd, Pik3cg, Scin, Rac2
LPS-stimulated macrophages
KEGG	rno04666:Fc gamma R-mediated phagocytosis	15	1.98E-04	1.8	Pak1, Pip5k1b, Arpc1b, Pla2g4a, Fcgr3-rs, Prkcd, Syk, Ppap2a, Myo10, Pld1, Gsn, Pik3cg, Asap1, Pla2g6, Was
KEGG	rno04144:Endocytosis	22	2.20E-03	2.6	Igf1r, Vps37c, Adrbk1, Pip5k1b, Arrb2, Cblb, Tfrc, Git2, Grk4, Fam125a, Chmp1b, Dab2, Pld1, RT1-N2, Psd4, Ehd4, Ret, Erbb3, Mdm2, Asap1, Rab31, Sh3kbp1
PANTHER	P00016:Cytoskeletal regulation by Rho GTPase	15	5.57E-03	1.8	Pak1, Myh10, Cdgap, Ssh1, Arpc1b, Stmn4, Diaph3, Tubb6, Diaph1, Tubb5, Pak6, Rics, Arhgef12, Was, Diaph2
KEGG	rno04810:Regulation of actin cytoskeleton	21	7.50E-03	2.5	Pak1, Actn4, Pip5k1b, Myh10, LOC685269, Ssh1, Arpc1b, Pxn, Vcl, Diaph3, Fgd3, Diaph1, Gsn, Pak6, Gng12, Slc9a1, Pik3cg, Golga4, Arhgef12, Was, Diaph2

p value - modified Fisher’s exact test (EASE score); % - percentage (differentially expressed genes/total genes in pathway) involved genes