Table 5.

IPA summary of liver transcriptomes in hatchling chicks-D2FAST48h vs. D4REFED48h contrast^a

Top Canonical Pathways	p-value	Overlap	Ratio
Super-pathway of Cholesterol Biosynthesis	7.68E-10	39.3%	11/28
Tryptophan Degradation III	3.74E-09	40.0%	10/25
Sirtuin Signaling Pathway	6.93E-08	10.3%	30/292
Cholesterol Biosynthesis I-II	6.99E-08	53.8%	7/13
LPS/IL-1 Mediated Inhibition of RXR Function	5.58E-07	10.8%	24/222
Top Upstream Regulators predicted by IPA	p-value of overlap	# Target genes
PPARA	1.41E-20	62
NFE2L2	1.09E-14	50
HNF4A	3.61E-12	134
PPARGC1A	4.21E-12	34
SREBF2	5.77E-12	19
Top Molecular and Cellular Functions	p-value	# Genes
Lipid Metabolism	1.23E-03 - 6.04E-16	181
Molecular Transport	1.28E-03 - 6.04E-16	190
Small Molecule Biochemistry	1.28E-03 - 6.04E-16	237
Vitamin and Mineral Metabolism	1.14E-03 - 5.30E-14	64
Amino Acid Metabolism	1.14E-03 - 3.22E-10	38
Physiological System Development and Function	p-value	# Genes
Digestive System Development and Function	1.14E-03 - 6.09E-09	87
Hepatic System Development and Function	1.14E-03 - 6.09E-09	67
Organ Morphology	7.07E-04 - 6.09E-09	46
Organismal Development	1.22E-03 - 6.09E-09	147
Embryonic Development	1.22E-03 - 3.24E-08	55
Up-regulated genes	FAST48h/REFED48h	Down-regulated genes	FAST48h/REFED48h
IGFBP2	3.31	THRSPA	−6.47
ADSL	3.21	ME1	−4.97
CYP3A7	2.51	SCD	−4.55
CYP4A22	2.39	LGALS2	−4.14
BHMT	2.34	PLIN2	−3.64
AIF1L	2.31	FADS2	−3.86
LDHB	2.16	CYP51A1	−3.56
ABCG5	2.06	DIO2	−2.71
NDRG1	2.04	ENOVL6	−2.59
AKR1D1	1.97	MSMO1	−2.58

^aIngenuity Pathway Analysis (IPA) was used for functional analysis of 750 “Analysis Ready” (AR)-DEGs from the D2FAST48h vs. D4REFED48h contrast. The top 10 up-regulated and down-regulated AR-DEGs are presented along with their respective log2 ratio of treatment conditions, where positive numbers indicate higher expression in the D2FAST48h treatment and negative values indicate higher expression in the D4REFED48h treatment condition