Table 2.
Differently expressed genes identified by Next‐Generation Sequencing (NGS) between HCC and wild‐type liver tissues related to the pathways analyzed in Figure 4
| mRNA accession NO. | Gene symbol | Full name | W value | T value | Fold change | P‐value |
|---|---|---|---|---|---|---|
| Glycolysis; TCA cycle; Pentose phosphate pathway; Lipid biosynthesis | ||||||
| NM_133904 | Acacb | Acetyl‐Coenzyme A carboxylase beta | 5.65E+00 | 2.03E+01 | 1.28E+00 | 1.27E‐02 |
| NM_001199296 | Acly | ATP‐citrate synthase isoform 1 | 1.43E+01 | 1.23E+02 | 2.15E+00 | 2.47E‐02 |
| NM_019477 | Acsl4 | Long‐chain fatty‐acid–CoA ligase 4 isoform 2 | 7.41E+00 | 5.07E+01 | 1.92E+00 | 6.63E‐04 |
| NM_028176 | Cda | Cytidine deaminase | 2.51E+00 | 1.40E+01 | 1.72E+00 | 7.28E‐03 |
| NM_023203 | Dctpp1 | dCTP pyrophosphatase 1 | 5.87E+01 | 2.50E+01 | −8.54E‐01 | 3.99E‐02 |
| NM_007861 | Dld | Dihydrolipoyl dehydrogenase | 9.25E+01 | 3.90E+01 | −8.64E‐01 | 4.69E‐02 |
| NM_170778 | Dpyd | Dihydropyrimidine dehydrogenase | 1.30E+02 | 2.91E+01 | −1.50E+00 | 3.64E‐03 |
| NM_001164466 | Dpys | Dihydropyrimidinase | 7.85E+01 | 9.94E+00 | −2.07E+00 | 1.39E‐07 |
| NM_007988 | Fasn | Fatty acid synthase | 7.90E+01 | 2.58E+02 | 1.18E+00 | 5.74E‐03 |
| NM_010209 | Fh | Fumarate hydratase 1 | 1.37E+02 | 5.65E+01 | −8.86E‐01 | 6.23E‐05 |
| NM_008061 | G6pc | Glucose‐6‐phosphatase | 1.99E+02 | 1.47E+01 | −2.61E+00 | 2.28E‐09 |
| NM_019468 | G6pd2 | Glucose‐6‐phosphate 1‐dehydrogenase 2 | 2.66E‐01 | 6.06E+00 | 3.13E+00 | 2.63E‐03 |
| NM_011829 | Impdh1 | Inosine‐5′‐monophosphate dehydrogenase 1 | 8.62E‐01 | 3.44E+00 | 1.38E+00 | 2.29E‐02 |
| NM_008797 | Pcx | Pyruvate carboxylase | 6.31E+00 | 5.19E+01 | 2.11E+00 | 1.20E‐04 |
| NM_008826 | Pfkl | 6‐phosphofructokinase | 4.00E+00 | 1.30E+01 | 1.18E+00 | 9.30E‐03 |
| NM_001081274 | Pgd | 6‐phosphogluconate dehydrogenase | 2.31E+01 | 6.10E+01 | 9.71E‐01 | 3.58E‐02 |
| NM_011099 | Pkm2 | Pyruvate kinase isozymes M1/M2 | 1.09E+01 | 2.96E+01 | 9.99E‐01 | 2.30E‐02 |
| NM_011506 | Sucla2 | Succinyl‐CoA ligase [ADP‐forming] subunit beta | 8.10E+01 | 3.23E+01 | −9.19E‐01 | 2.64E‐02 |
| NM_133995 | Upb1 | Beta‐ureidopropionase | 2.14E+02 | 8.74E+01 | −8.95E‐01 | 3.23E‐05 |
| NM_146006 | Lss | Lanosterol synthase | 1.18E+01 | 6.96E+01 | 1.77E+00 | 1.02E‐03 |
| NM_007856 | Dhcr7 | 7‐dehydrocholesterol reductase | 2.68E+01 | 9.47E+01 | 1.26E+00 | 2.58E‐02 |
| NM_138656 | Mvd | Mevalonate (diphospho) decarboxylase | 3.42E+00 | 2.57E+01 | 2.02E+00 | 6.45E‐05 |
| NM_145927 | Fntb | Protein farnesyltransferase subunit beta | 1.61E‐01 | 1.63E+00 | 2.31E+00 | 2.82E‐02 |
| Glutathione metabolism | ||||||
| NM_172961 | Abat | 4‐aminobutyrate aminotransferase | 3.77E+01 | 1.14E+01 | −1.20E+00 | 3.64E‐03 |
| NM_019468 | G6pd2 | Glucose‐6‐phosphate 1‐dehydrogenase 2 | 2.66E‐01 | 6.06E+00 | 3.13E+00 | 2.63E‐03 |
| NM_001081274 | Pgd | 6‐phosphogluconate dehydrogenase | 2.31E+01 | 6.10E+01 | 9.71E‐01 | 3.58E‐02 |
| NM_008160 | Gpx1 | Glutathione peroxidase 1 | 1.38E+03 | 1.28E+02 | −2.38E+00 | 1.35E‐04 |
| NM_177410 | Bcl2 | B cell leukemia/lymphoma 2 | 2.16E‐01 | 1.03E+00 | 1.56E+00 | 1.01E‐02 |
| NM_011671 | Ucp2 | Uncoupling protein 2 | 3.94E+00 | 1.89E+01 | 1.57E+00 | 1.79E‐04 |
| Cholesterol and bile acid biosynthesis | ||||||
| NM_145364 | Akr1d1 | 3‐oxo‐5‐beta‐steroid 4‐dehydrogenase | 1.13E+02 | 9.67E+00 | −2.46E+00 | 2.21E‐09 |
| NM_008537 | Amacr | Alpha‐methylacyl‐CoA racemase | 4.97E+01 | 2.17E+01 | −8.29E‐01 | 4.15E‐02 |
| NM_007519 | Baat | Bile acid‐CoA:amino acid N‐acyltransferase | 1.44E+02 | 3.16E+01 | −1.52E+00 | 3.42E‐04 |
| NM_016668 | Bhmt | Betaine–homocysteine S‐methyltransferase 1 | 1.57E+03 | 5.90E+01 | −3.28E+00 | 1.29E‐03 |
| NM_024264 | Cyp27a1 | Sterol 26‐hydroxylase | 1.82E+02 | 2.49E+01 | −1.99E+00 | 3.36E‐06 |
| NM_010010 | Cyp46a1 | Cholesterol 24‐hydroxylase | 1.59E+00 | 1.28E‐01 | −2.52E+00 | 6.88E‐04 |
| NM_007824 | Cyp7a1 | Cholesterol 7‐alpha‐monooxygenase | 6.62E+01 | 3.18E+00 | −3.04E+00 | 1.64E‐13 |
| NM_007825 | Cyp7b1 | 25‐hydroxycholesterol 7‐alpha‐hydroxylase | 1.74E+02 | 9.14E+00 | −2.95E+00 | 3.37E‐12 |
| NM_010012 | Cyp8b1 | 7‐alpha‐hydroxycholest‐4‐en‐3‐one | 6.44E+01 | 1.31E+00 | −3.90E+00 | 0.00E+00 |
| NM_028772 | Dmgdh | Dimethylglycine dehydrogenase | 2.08E+02 | 2.70E+01 | −2.04E+00 | 2.72E‐05 |
| NM_010321 | Gnmt | Glycine N‐methyltransferase | 1.44E+03 | 8.06E+01 | −2.88E+00 | 2.01E‐06 |
| NM_133943 | Hsd3b7 | 3 beta‐hydroxysteroid dehydrogenase type 7 | 7.31E+01 | 2.82E+01 | −9.53E‐01 | 1.79E‐02 |
| NM_008952 | Pipox | Peroxisomal sarcosine oxidase | 1.88E+02 | 5.13E+01 | −1.30E+00 | 3.65E‐03 |
| NM_146006 | Lss | Lanosterol synthase | 1.18E+01 | 6.96E+01 | 1.77E+00 | 1.02E‐03 |
| NM_007856 | Dhcr7 | 7‐dehydrocholesterol reductase | 2.68E+01 | 9.47E+01 | 1.26E+00 | 2.58E‐02 |
| NM_138656 | Mvd | Mevalonate (diphospho) decarboxylase | 3.42E+00 | 2.57E+01 | 2.02E+00 | 6.45E‐05 |
| NM_145927 | Fntb | Protein farnesyltransferase subunit beta | 1.61E‐01 | 1.63E+00 | 2.31E+00 | 2.82E‐02 |
The mRNA levels of differently expressed genes related to metabolism pathways of glycolysis, TCA cycle, pentose phosphate, lipid, glutathione, and cholesterol are shown. HCC (n = 5) and wild‐type liver (n = 5) and tissues were analyzed. P values were calculated using Student's t‐test and P < 0.05 means the significant difference. W, wild‐type liver; T, hepatocellular carcinoma (HCC); Fold change: ln (T mean/W mean).