Table 3. Gene Set Enrichment Analysis, significant functional classes and pathways (p < 0.10) are shown from DEG (FDR < 0.20) comparing high and low IMF GEBV animals.

Name	Type	Total number of Neighbors	Number of Measured Neighbors	Gene Set Seed	Neighbors	padj 1
Neighbors of L-cysteine	Pathway	366	5	L-cysteine	MT3, GRM4, PGM1, TGM2, ELN	0.011
Neighbors of Zn2+	Pathway	905	6	Zn2+	MT3, ADAMTS12, PGM1, TGM2, SLC2A4, STAT5A	0.021
Neighbors of oxidized LDL	Pathway	424	5	oxidized LDL	PTAFR, COL4A2, TGM2, SERPINE2, SLC2A4	0.023
Neighbors of inflammatory cytokine	Pathway	774	9	inflammatory cytokine	MT3, ADAMTS12, FBXO32, CRYAB, TGM2, SERPINE2, SLC2A4, ELN, STAT5A	0.025
Neighbors of H2O2	Pathway	1142	8	H2O2	MT3, FBXO32, CRYAB, HTATIP2, TGM2, SLC2A4, TGFB1I1, ELN	0.030
Neighbors of Mg2+	Pathway	562	5	Mg2+	ADAMTS12, PGM1, TGM2, REM1, ELN	0.033
Neighbors of ATP	Pathway	1167	9	ATP	GRM4, PGM1, FBXO32, CRYAB, SLC4A4, TGM2, SLC2A4, GYPC, NRP1	0.061
Neighbors of IL1B	Pathway	1191	12	IL1B	MT3, CSRP3, RGS16, FBXO32, CRYAB, TGM2, SERPINE2, SLC2A4, SPARC, ELN, STAT5A, NRP1	0.063
Neighbors of retinoic acid	Pathway	1605	12	retinoic acid	SLC7A4, CSRP3, PTAFR, RGS16, CPM, TGM2, SLC2A4, FLNA, SPARC, ELN, STAT5A, ROCK2	0.074
Neighbors of NF-kB	Pathway	1125	9	NF-kB	MT3, PTAFR, RGS16, FBXO32, TGM2, SLC2A4, ELN, STAT5A, FSCN1	0.085
Neighbors of protein tyrosine kinase	Pathway	823	7	protein tyrosine kinase	PGM1, PTAFR, RGS16, SLC4A4, SLC2A4, STAT5A, BCR	0.092
Neighbors of NO	Pathway	862	8	NO	CSRP3, PTAFR, FBXO32, TGM2, SLC2A4, SPARC, ELN, STAT5A	0.097
Neighbors of ROS	Pathway	787	8	ROS	MT3, PTAFR, SLC4A4, TGM2, SLC2A4, TGFB1I1, ELN, STAT5A	0.098

¹ padj—p value adjusted for multiple testing with the Benjamini-Hochberg procedure, which controls false discovery rate (FDR).