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Table 3 IPA summary of liver transcriptomes in hatchling chicks–D2FAST48h vs. D2REFED4h contrast

From: Transcriptome analyses of liver in newly-hatched chicks during the metabolic perturbation of fasting and re-feeding reveals THRSPA as the key lipogenic transcription factor

Top Canonical Pathways

p-value

Overlap

Ratio

Super-pathway of Cholesterol Biosynthesis

4.68E-09

35.7%

10/28 Cholesterol

Biosynthesis I-III

3.23E-08

53.8%

7/13

Protein Ubiquitination Pathway

9.27E-07

9.4%

24/255

Tryptophan Degradation III

5.12E-06

28.0%

7/25

Zymosterol Biosynthesis

1.01E-05

66.7%

4/6

Top Upstream Regulators

p-value of overlap

# Target genes

HNF4A

1.64E-16

126

PPARA

3.12E-15

46

NFE2L2

2.26E-13

44

TP53

3.37E-13

92

E2F1

2.26E-11

44

Top Molecular and Cellular Functions

p-value

# Genes

Cell Death and Survival

7.95E-03 - 5.11E-10

206

Lipid Metabolism

7.07E-03 - 6.42E-09

118

Small Molecule Biochemistry

7.12E-03 - 6.42E-09

160

Vitamin and Mineral Metabolism

7.07E-03 - 4.29E-08

39

Cellular Growth and Proliferation

8.01E-03 - 7.35E-08

217

Physiological System Development and Function

p-value

# Genes

Reproductive System Development and Function

4.46E-05 - 4.46E-05

8

Connective Tissue Development and Function

7.76E-03 - 6.39E-05

89

Embryonic Development

5.24E-03 - 1.23E-04

29

Cardiovascular System Development and Function

5.24E-03 - 1.49E-04

10

Tissue Morphology

6.24E-03 - 1.99E-04

63

Top Up-regulated genes

FAST48h/REFED4h

Top Down-regulated genes

FAST48h/REFED4h

CYP4A22

2.53

THRSPA

−4.89

UPP2

2.49

HKDC1

−4.17

IGFBP2

1.79

CYP51A1

−3.60

NDRG1

1.77

MSMO1

−3.44

TDO2

1.68

PLIN2

−3.37

VSNL1

1.68

ME1

−2.78

HAL

1.56

UGP2

−2.72

TDH

1.53

AACS

−2.68

CEPT1

1.51

ACSBG2

−2.50

SLC16A5

1.46

INSIG1

−2.43

  1. Ingenuity Pathway Analysis (IPA) was used for functional analysis of 641 “Analysis Ready” (AR)-DEGs found in the D2FAST48h vs.D2REFED4h contrast. The top 10 up-regulated and down-regulated AR-DEGs are presented along with their respective log2 ratio of treatment conditions