Table 3 Up-regulated genes in cirrhotic and non-cirrhotic HCV liver biopsy samples
Function | Symbol | Description | GeneBank | t- test |
|---|---|---|---|---|
Apoptosis | CASP9 | Caspase-9 precursor (EC 3.4.22) | NM_001229.2 | 0.000207 |
apoptosis | EMP1 | Epithelial membrane protein 1 | NM_001423.1 | 1.38E-06 |
cell adhesion | YIF1A | Protein YIF1A | NM_020470.1 | 0.000115 |
Cell Cycle | CHES1 | Checkpoint suppressor 1 | NM_005197.2 | 0.047852 |
Cell Cycle | CCNG1 | Cyclin-G1 | NM_004060.3 | 0.002296 |
Cell singling | LRRC41 | Leucine-rich repeat-containing protein 41 | NM_006369.4 | 0.000132 |
cell singling | SCG3 | Secretogranin-3 precursor | NM_013243.2 | 4.69E-05 |
Cell singling | FLRT1 | Leucine-rich repeat transmembrane protein FLRT1 precursor | NM_013280.4 | 0.022495 |
cell singling | SIGLEC8 | Sialic acid-binding Ig-like lectin 8 precursor | NM_014442.2 | 0.020819 |
cell structure | HYLS1 | hydrolethalus syndrome 1 | NM_145014.1 | 7.28E-05 |
cell structure | TOR1AIP1 | Torsin-1A-interacting protein 1 | NM_015602.2 | 5.13E-05 |
cytokine | CRLF3 | cytokine receptor-like factor 3 | XM_001128008.1 | 3.25E-06 |
cytokine | PLEKHG6 | pleckstrin homology domain containing, family G | NM_018173.1 | 0.004661 |
Cytoskeleton | KRTAP19-5 | Keratin-associated protein 19-5 | NM_181611.1 | 0.000296 |
cytoskeleton | COMMD5 | COMM domain-containing protein 5 | NM_014066.2 | 8.2E-07 |
DNA replication | CENPJ | Centromere protein J | NM_018451.2 | 2.22E-05 |
DNA replication | TOP3B | DNA topoisomerase 3-beta-1 | XM_001129880.1 | 1.79E-05 |
DNA replication | DDX54 | ATP-dependent RNA helicase | NM_024072.3 | 0.080445 |
Energy | Q5VTU8 | ATP synthase, | NR_002162.1 | 9.93E-05 |
Energy | COX6A1 | Cytochrome c oxidase polypeptide VIa-liver | NM_004373.2 | 0.077561 |
Immune response | CRYBB3 | Beta crystallin B3 | NM_004076.3 | 2.89E-05 |
Immune response | FCRL3 | Fc receptor-like 3 precursor | NM_052939.3 | 9.14E-06 |
Immune response | IFITM2 | interferon induced transmembrane protein 2 | NM_006435.1 | 0.000197 |
Immune response | DEFB114 | Beta-defensin 114 precursor | NM_001037499.1 | 0.003039 |
Immune response | IFNA21 | Interferon alpha-21 precursor | NM_002175.1 | 0.019498 |
Immune response | KIR2DL1 | Killer cell immunoglobulin-like receptor 3DL2 precursor | NM_153443.2 | 0.014098 |
Ion transport | CANX | Calnexin precursor | NM_001024649.1 | 0.097857 |
Ion transport | CLGN | Calmegin precursor | NM_004362.1 | 0.002724 |
ion transport | HHLA3 | HERV-H LTR-associating 3 isoform 2 | NM_001036645.1 | 0.003147 |
kinase activity | PDXK | Pyridoxal kinase | NM_003681.3 | 0.037672 |
kinase activity | PRKCB1 | Protein kinase C beta type | NM_002738.5 | 0.009381 |
Lipid Metabolism | PPAPDC3 | Probable lipid phosphate phosphatase PPAPDC3 | NM_032728.2 | 6.06E-05 |
Lipid Metabolism | OSBPL2 | Oxysterol-binding protein-related protein 2 | NM_144498.1 | 0.016902 |
lipid metabolism | Q5R387 | Novel protein | XM_372769.4 | 0.000376 |
liver functions | LEPROT | Leptin receptor precursor | NM_017526.2 | 0.107525 |
Metabolism | EMR1 | EGF-like module-containing mucin-like hormone receptor-like 1 precursor | NM_001974.3 | 0.00022 |
Metabolism | UROD | Uroporphyrinogen decarboxylase | NM_000374.3 | 0.004853 |
metabolism | DCN | Decorin precursor | NM_001920.3 | 0.000807 |
Metabolism | FAHD2B | fumarylacetoacetate hydrolase domain containing 2B | XR_016023.1 | 4.16E-06 |
Metabolism | ACSBG2 | Prostatic acid phosphatase precursor | NM_001099.2 | 1.55E-05 |
Metabolism | ANTXR2 | Anthrax toxin receptor 2 precursor | NM_058172.3 | 1.92E-05 |
Metabolism | CDA | Cytidine deaminase | NM_001785.2 | 0.005579 |
Metabolism | CTSD | Cathepsin D precursor | NM_001909.3 | 0.028633 |
Metabolism | GOT2 | Aspartate aminotransferase, mitochondrial precursor | XR_016602.1 | 0.000258 |
Metabolism | NAT13 | Mak3 homolog | XR_018106.1 | 5.03E-06 |
Metabolism | TIGD5 | Tigger transposable element-derived protein 5 | NM_032862.2 | 0.057722 |
nervous system | NPAS3 | Neuronal PAS domain-containing protein 3 | NM_022123.1 | 0.000115 |
nervous system | GPR98 | G-protein coupled receptor 98 precursor | NM_032119.3 | 0.000239 |
nervous system | NEUROD2 | Neurogenic differentiation factor 2 | NM_006160.3 | 2.17E-05 |
nervous system | LAMB2 | Laminin subunit beta-2 precursor | NM_002292.3 | 0.007081 |
protein Metabolism | CSDE1 | GTPase NRas precursor | NM_002524.2 | 0.017096 |
protein Metabolism | ENPP7 | Ectonucleotide pyrophosphatase | NM_178543.3 | 0.000321 |
protein Metabolism | KIAA1147 | KIAA1147 (KIAA1147), mRNA | NM_001080392.1 | 0.000106 |
protein Metabolism | KIAA2013 | KIAA2013 (KIAA2013), mRNA | NM_138346.1 | 2.86E-05 |
protein Metabolism | KNG1 | Kininogen-1 precursor | NM_000893.2 | 0.002086 |
protein Metabolism | APOOL | Protein FAM121A precursor | NM_198450.3 | 0.019311 |
Protein modulation | HAT1 | Histone acetyltransferase type B catalytic subunit | NM_001033085.1 | 0.000447 |
Protein modulation | RIMS2 | Regulating synaptic membrane exocytosis protein 2 | NM_014677.2 | 0.000572 |
Protein modulation | UBL4B | Ubiquitin-like protein 4B | NM_203412.1 | 2.33E-05 |
Protein modulation | UBE1L | Ubiquitin-activating enzyme E1 homolog | NM_003335.2 | 0.021531 |
Protein modulation | USP54 | ubiquitin specific protease 54 | NM_152586.2 | 0.005541 |
Protein synthesis | RNPEP | Aminopeptidase B | NM_020216.3 | 0.0218 |
PTMs | SNF1LK2 | Serine/threonine-protein kinase SNF1-like kinase 2 | NM_015191.1 | 0.00037 |
RNA modelling and synthesis | IMP3 | U3 small nucleolar ribonucleoprotein protein IMP3 | NM_018285.2 | 7.13E-05 |
RNA modelling and synthesis | SF3A2 | Splicing factor 3A subunit 2 | NM_007165.4 | 0.123287 |
Signal Transduction | CACNB3 | Voltage-dependent L-type calcium channel subunit beta-3 | NM_000725.2 | 0.00248 |
Signal Transduction | PCSK5 | Proprotein convertase subtilisin/kexin type 5 precursor | NM_006200.2 | 6.62E-06 |
Signal Transduction | VDAC3 | Voltage-dependent anion-selective channel protein 3 | XR_019103.1 | 0.000231 |
Signal Transduction | ITGB6 | Integrin beta-6 precursor | NM_000888.3 | 0.008005 |
sulphur metabolism | FAM119B | family with sequence similarity 119 | NM_015433.2 | 0.018357 |
Transcriptional regulation | LYSMD3 | LysM and putative peptidoglycan-binding domain-containing protein 3 | NM_198273.1 | 0.004237 |
transcriptional regulation | FOXI1 | Forkhead box protein I1 | NM_012188.3 | 1.84E-05 |
transcriptional regulation | MYCL1 | L-myc-1 proto-oncogene protein | NM_001033081.1 | 4.97E-05 |
transcriptional regulation | MYOD1 | Myoblast determination protein 1 | NM_002478.4 | 7.25E-06 |
transcriptional regulation | PRDM5 | PR domain zinc finger protein 5 | NM_018699.2 | 1.03E-07 |
Transcriptional regulation | YBX1 | Nuclease sensitive element-binding protein 1 | XM_001129294.1 | 6.12E-05 |
Transcriptional regulation | ANKHD1 | Eukaryotic translation initiation factor 4E-binding protein 3 | NM_020690.4 | 0.041134 |
transcriptional regulation | RUNX2 | Runt-related transcription factor 2 | NM_001024630.2 | 0.064668 |
Transcriptional regulation | SUSD4 | Sushi domain-containing protein 4 precursor | NM_017982.2 | 0.004775 |
Transport | CLPB | Caseinolytic peptidase B protein homolog | NM_030813.3 | 0.027308 |
Transport | K1024 | UPF0258 protein KIAA1024 | NM_015206.1 | 0.001564 |
transport | NOS2A | nitric oxide synthase 2, inducible1 | NM_000625 | 0.017057 |
transport | SCGN | Secretagogin | NM_006998.3 | 2E-06 |
Transport | FBXO32 | F-box only protein 32 | NM_148177.1 | 0.043284 |
Uncharacterized | C12orf41 | CDNA FLJ12670 | NM_017822.2 | 0.001604 |
Uncharacterized | C17orf56 | CDNA FLJ31528 | NM_144679.1 | 1.11E-06 |
Uncharacterized | C21orf59 | Uncharacterized protein | NM_021254.1 | 0.001335 |
Uncharacterized | C4orf20 | CDNA FLJ11200 | NM_018359.1 | 0.000365 |
Uncharacterized | C9orf7 | Uncharacterized protein | NM_017586.1 | 0.002015 |
Uncharacterized | C9orf91 | C9orf91 protein | NM_153045.2 | 2.21E-06 |
Uncharacterized | KIAA0562 | glycine-, glutamate-, thienylcyclohexylpiperidine-binding protein | NM_014704.2 | 5.09E-05 |
Uncharacterized | KLHL30 | kelch-like 30 | NM_198582.1 | 5.06E-06 |
Uncharacterized | LOC728660 | - | XM_001128340.1 | 0.000153 |
Uncharacterized | Q71MF4 | - | - | 7.89E-05 |
Uncharacterized | Q8TCQ8 | CDNA FLJ90801 fis, clone Y79AA1000207 | XM_001134000.1 | 0.028312 |
Uncharacterized | Q8WY63 | PP565 | - | 0.017959 |
Uncharacterized | ST8SIA6 | Alpha-2,8-sialyltransferase 8F | NM_001004470.1 | 0.008458 |
Uncharacterized | C10orf6 | Uncharacterized protein C10orf6 | NM_018121.2 | 0.000673 |
Uncharacterized | O75264 | - | XM_209196.5 | 0.01282 |
Uncharacterized | Q9NW32 | CDNA FLJ10346 | - | 0.038301 |
Uncharacterized | S11Y | Putative S100 calcium-binding protein | XM_001126350.1 | 0.002549 |
Vision | ST13 | Hsc70-interacting protein | XR_018201.1 | 0.012047 |
Vision | DUPD1 | dual specificity phosphatase and pro isomerase domain containing 1 | NM_001003892.1 | 4.5E-06 |
Vision | OR6P1 | Olfactory receptor 6P1 | - | 1.78E-05 |
Vision | ARSH | arylsulfatase H | NM_001011719.1 | 0.002229 |
Vision | OR51F2 | Olfactory receptor 51F2 | NM_001004753.1 | 0.018938 |
Vision | OR7G3 | Olfactory receptor 7G3 | NM_001001958.1 | 0.077667 |