Table 7 IPA summary of the liver transcriptome in the D1 vs. D9 contrast

Top Canonical Pathways

p-value

Overlap

Ratio

 Superpathway of Cholesterol Biosynthesis

2.07E-08

73.9%

17/23

 Cholesterol Biosynthesis I-III

3.03E-06

90.0%

9/10

 Complement System

8.89E-06

41.7%

10/24

 Stearate Biosynthesis

1.36E-05

36.7%

11/30

 LXR/RXR Activation

1.42E-05

25%

18/72

Top Upstream Regulators

p-value of overlap

# Target genes

 PPARA

4.31E-29

86

 TP53

1.01E-24

179

 E2F4

8.06E-18

51

 SREBF2

8.28E-18

29

 TCF3

9.21E-17

59

Top Molecular and Cellular Functions

p-value

# Genes

 Cell Cycle

5.90E-04 - 5.96E-16

236

 Cellular Assembly and Organization

6.09E-04 - 5.96E-16

103

 DNA Replication, Recombination, and Repair

4.27E-04 - 5.96E-16

128

 Lipid Metabolism

5.51E-04 - 1.94E-15

248

 Small Molecule Biochemistry

5.51E-04 - 1.94E-15

281

Physiological System Development and Function

p-value

# Genes

 Connective Tissue Development and Function

5.90E-04 - 2.82E-07

129

 Tissue Morphology

5.90E-04 - 2.82E-07

172

 Reproductive System Development and Function

5.51E-04 - 7.32E-07

16

 Digestive System Development and Function

5.51E-04 - 1.50E-05

56

 Hepatic System Development and Function

8.31E-05 - 1.50E-05

55

Top Toxicity Functions

p-value

Overlap

Ratio

 Fatty Acid Metabolism

1.66E-07

30.3%

20/66

 Cholesterol Biosynthesis

5.16E-07

60.0%

9/15

 LXR/RXR Activation

1.74E-05

24.7%

18/73

 Cell Cycle: G2/M DNA Damage Checkpoint Regulation

7.32E-05

29.3%

12/41

 Liver Necrosis/Cell Death

1.07E-04

15.9%

35/220

Top Up-regulated Genes

log2 Ratio

Top Down-regulated Genes

log2 Ratio

 CHODL

3.79

CDKN2B

−8.46

 SRL

3.78

SQLE

−7.71

 IGFBP2

3.05

THRSPA

−6.39

 PDK4

2.95

FADS2

−6.19

 PTGDS

2.89

SCD

−6.11

 ACBD7

2.88

CDO1

−6.10

 PPARGC1A

2.80

UCHL1

−5.86

 CPT1A

2.77

LSS

−5.40

 LPL

2.73

ENPEP

−5.17

 DIO3

2.73

PNPLA3

−5.14