Response of the goat mammary gland to infection with Staphylococcus aureus revealed by gene expression profiling in milk somatic and white blood cells

Table 4 Most significant affected IPA canonical pathways

Canonical pathway (IPA)	Genes	P-value	Ratio
T4
MIF-mediated Glucocorticoid Regulation	TLR4, NFKBIA, CD14, PTGS2, NFKBIB, NFKB1	4.67E-06	6/41
MIF Regulation of Innate Immunity	TLR4, NFKBIA, CD14, PTGS2, NFKBIB, NFKB1	1.8E-05	6/49
NF-κB Signalling	TLR4, IL1A, TGFBR1, RIPK1, NFKBIA, MYD88, BMP2, RELB, TNFAIP3, NFKBIB, NFKB1	2.46E-05	11/176
IL-10 Signalling	IL18RAP, IL1A, NFKBIA, CD14, ARG2, NFKBIB, NFKB1	4.47E-05	7/78
Hypoxia Signalling in the Cardiovascular System	HSP90B1, UBE2H (includes EG:7328), NFKBIA, UBE2B, HIF1A, NFKBIB, UBE2L6	5.4E-05	7/71
T5
Production of Nitric Oxide and Reactive Oxygen Species in Macrophages	TLR4, PPP1R3D, NFKBIA, ARG2, NCF4, NFKB1, RHOH, IRF1, SIRPA	1.98E-06	9/189
LXR/RXR Activation	TLR4, IL18RAP, FASN, CD14, ARG2, NFKB1	1.85E-05	6/93
Toll-like Receptor Signalling	TLR4, NFKBIA, MYD88, CD14, NFKB1	2.72E-05	5/55
Acute Phase Response Signalling	SOD2, C3, NFKBIA, MYD88, OSM, SERPINA1, NFKB1, SAA1	3.59E-05	8/183
MIF-mediated Glucocorticoid Regulation	TLR4, NFKBIA, CD14, NFKB1	8.09E-05	4/41

Five most significant canonical pathways identified with IPA using the significantly affected genes for T₄ and T₅. The identified canonical pathways are listed from the lowest to the highest p-value, and are reported with the involved genes and the corresponding ratio (# of genes involved/ # of known genes in the pathway).

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