TABLE 5.
GENES WITH MOST SIGNIFICANT CHANGES IN EXPRESSION BETWEEN LOW AND HIGH SCORES OF FIBROSIS
| GenBank Accession No. | Description | Mean ± SD of Fibrosis Score | Fold Change | p-Value | |
|---|---|---|---|---|---|
| 0–1 | 2–3 | ||||
| Downregulated genes | |||||
| D14564 | Rattus norvegicus gene for l-gulono-gamma-lactone oxidase, exon 7 | 2.48 ± 1.21 | 0.38 ± 0.28 | ↓ 6.6 | <0.0001 |
| AA892345 | Dimethylglycine dehydrogenase precursor | 2.23 ± 1.07 | 0.42 ± 0.27 | ↓ 5.3 | <0.0001 |
| AI232087 | Rattus norvegicus transcribed sequences | 2.05 ± 0.83 | 0.49 ± 0.28 | ↓ 4.2 | <0.0001 |
| M77479 | Solute carrier family 10, member 1 | 1.42 ± 0.58 | 0.36 ± 0.33 | ↓ 4.0 | <0.0001 |
| S46785 | Insulin-like growth factor binding protein complex acid-labile subunit (rats, liver, mRNA, 2190 nt) | 1.69 ± 0.59 | 0.47 ± 0.29 | ↓ 3.6 | <0.0001 |
| U68168 | Kynureninase (l-kynurenine hydrolase) | 1.61 ± 0.58 | 0.47 ± 0.35 | ↓ 3.4 | <0.0001 |
| U32314 | Pyruvate carboxylase | 1.59 ± 0.63 | 0.48 ± 0.33 | ↓ 3.3 | <0.0001 |
| D90109 | Fatty acid Coenzyme A ligase, long chain 2 | 1.42 ± 0.52 | 0.44 ± 0.26 | ↓ 3.3 | <0.0001 |
| D28560 | Ectonucleotide pyrophosphatase/phosphodiesterase 2 | 1.27 ± 0.40 | 0.39 ± 0.34 | ↓ 3.2 | <0.0001 |
| AF080468 | Glucose-6-phosphatase, transport protein 1 | 1.42 ± 0.53 | 0.45 ± 0.16 | ↓ 3.2 | <0.0001 |
| AA817846 | ESTs, strong similarity to protein ref:NP_004042.1 (H. sapiens) 3-hydroxybutyrate dehydrogenase precursor | 1.43 ± 0.52 | 0.45 ± 0.40 | ↓ 3.2 | <0.0001 |
| AA926193 | Sulfotransferase family, cytosolic, 1C, member 2 | 1.56 ± 0.57 | 0.50 ± 0.28 | ↓ 3.1 | <0.0001 |
| X06150 | Glycine methyltransferase | 1.45 ± 0.45 | 0.48 ± 0.34 | ↓ 3.0 | <0.0001 |
| M59861 | 10-Formyltetrahydrofolate dehydrogenase | 1.54 ± 0.66 | 0.52 ± 0.33 | ↓ 3.0 | <0.0001 |
| D63704 | Dihydropyrimidinase | 1.42 ± 0.32 | 0.48 ± 0.29 | ↓ 3.0 | <0.0001 |
| M11266 | Ornithine transcarbamylase | 1.35 ± 0.42 | 0.46 ± 0.26 | ↓ 2.9 | <0.0001 |
| AA799560 | N-myc downstream-regulated gene 2 | 1.35 ± 0.43 | 0.48 ± 0.30 | ↓ 2.8 | <0.0001 |
| AA893244 | ESTs, moderate similarity to protein pdb:1LBG (E. coli) B Chain B | 1.88 ± 0.74 | 0.67 ± 0.24 | ↓ 2.8 | <0.0001 |
| D85035 | Dihydropyrimidine dehydrogenase | 1.43 ± 0.44 | 0.53 ± 0.21 | ↓ 2.7 | <0.0001 |
| U10357 | Pyruvate dehydrogenase kinase 2 | 1.48 ± 0.49 | 0.55 ± 0.14 | ↓ 2.7 | <0.0001 |
| J03588 | Guanidinoacetate methyltransferase | 1.12 ± 0.34 | 0.41 ± 0.30 | ↓ 2.7 | <0.0001 |
| U72497 | Fatty acid amide hydrolase | 1.56 ± 0.57 | 0.58 ± 0.25 | ↓ 2.7 | <0.0001 |
| Z50144 | Kynurenine aminotransferase 2 | 1.37 ± 0.36 | 0.53 ± 0.34 | ↓ 2.6 | <0.0001 |
| M23601 | Monoamine oxidase B | 1.45 ± 0.44 | 0.60 ± 0.37 | ↓ 2.4 | 0.0001 |
| M12337 | Phenylalanine hydroxylase | 1.39 ± 0.35 | 0.61 ± 0.20 | ↓ 2.3 | <0.0001 |
| AI013861 | 3-Hydroxyisobutyrate dehydrogenase | 1.27 ± 0.37 | 0.56 ± 0.22 | ↓ 2.3 | <0.0001 |
| M86235 | Rattus norvegicus mRNA for ketohexokinase | 1.19 ± 0.32 | 0.54 ± 0.18 | ↓ 2.2 | <0.0001 |
| X64336 | Protein C | 1.23 ± 0.40 | 0.59 ± 0.20 | ↓ 2.1 | <0.0001 |
| M15185 | S-Adenosyl-l-homocysteine hydrolase (EC 3.3.1.1); rat S-adenosyl-l-homocysteine hydrolase mRNA, complete cds | 1.28 ± 0.34 | 0.63 ± 0.14 | ↓ 2.0 | <0.0001 |
| X12459 | Arginosuccinate synthetase | 1.40 ± 0.38 | 0.73 ± 0.20 | ↓ 1.9 | <0.0001 |
| M13100 | ORFa′; ORFa; ORFb; ORFc; ORFd1; ORFd2; putative; rat long interspersed repetitive DNA sequence LINE3 (L1Rn) | 1.32 ± 0.59 | 0.69 ± 0.29 | ↓ 1.9 | 0.0022 |
| Upregulated genes | |||||
| AI169327 | Tissue inhibitor of metalloproteinase 1 | 0.43 ± 0.65 | 3.23 ± 1.65 | ↑ 7.4 | 0.0017 |
| J03627 | S-100 related protein, clone 42C | 0.46 ± 0.55 | 3.37 ± 1.98 | ↑ 7.3 | 0.0041 |
| AI071531 | Oxidized low density lipoprotein (lectin-like) receptor 1 | 0.56 ± 0.62 | 3.73 ± 1.36 | ↑ 6.7 | 0.0002 |
| M60921 | B-cell translocation gene 2, anti-proliferative | 0.56 ± 0.50 | 3.03 ± 2.20 | ↑ 5.4 | 0.0154 |
| M63282 | Activating transcription factor 3 | 0.77 ± 0.74 | 3.80 ± 2.82 | ↑ 4.9 | 0.0189 |
| X95986 | Monomer; Rattus norvegicus CBR gene | 0.48 ± 0.54 | 2.14 ± 0.88 | ↑ 4.5 | 0.0007 |
| AA859536 | Rattus norvegicus transcribed sequences | 0.49 ± 0.32 | 2.16 ± 0.72 | ↑ 4.4 | 0.0002 |
| AI639488 | ESTs, moderate similarity to protein prf:1814460A (H. sapiens) 1814460A p53-associated protein (Homo sapiens) | 0.68 ± 0.76 | 2.93 ± 1.23 | ↑ 4.3 | 0.0008 |
| J05122 | Benzodiazepin receptor | 0.63 ± 0.35 | 2.51 ± 0.95 | ↑ 4.0 | 0.0007 |
| X61654 | CD63 antigen | 0.46 ± 0.32 | 1.82 ± 0.79 | ↑ 3.9 | 0.0016 |
| AI104781 | Arachidonate 5-lipoxygenase activating protein | 0.61 ± 0.42 | 2.38 ± 1.14 | ↑ 3.9 | 0.0027 |
| AI169104 | ESTs, weak similarity to protein sp:P02776 (H. sapiens) PLF4_HUMAN Platelet factor 4 precursor (PF-4) | 0.55 ± 0.40 | 2.16 ± 1.03 | ↑ 3.9 | 0.0027 |
| AI171962 | Annexin 1 | 0.57 ± 0.39 | 1.88 ± 0.56 | ↑ 3.3 | 0.0001 |
| X62951 | R. norvegicus mRNA (pBUS19) with repetitive elements | 0.89 ± 1.10 | 2.92 ± 1.69 | ↑ 3.3 | 0.0114 |
| U02320 | Neuregulin 1 | 0.69 ± 0.52 | 2.19 ± 0.59 | ↑ 3.2 | <0.0001 |
| AA900505 | rhoB gene | 0.78 ± 0.47 | 2.38 ± 0.61 | ↑ 3.1 | <0.0001 |
| M12919 | Aldolase A | 0.54 ± 0.23 | 1.66 ± 0.59 | ↑ 3.1 | 0.0008 |
| AJ009698 | Embigin | 0.57 ± 0.37 | 1.74 ± 0.54 | ↑ 3.0 | 0.0002 |
| Downregulated genes | |||||
| AA875523 | Rattus norvegicus similar to Myosin light chain alkali, smooth-muscle isoform (MLC3SM) (LOC297831), mRNA | 0.53 ± 0.26 | 1.52 ± 0.49 | ↑ 2.8 | 0.0005 |
| M35300 | Serine protease inhibitor, Kazal type 1 | 1.18 ± 1.49 | 3.29 ± 1.06 | ↑ 2.8 | 0.0008 |
| AF017437 | Integrin-associated protein | 0.72 ± 0.36 | 1.96 ± 0.76 | ↑ 2.7 | 0.0020 |
| AF020618 | Myeloid differentiation primary response gene 116 | 0.89 ± 0.27 | 2.24 ± 1.32 | ↑ 2.5 | 0.0231 |
| X52815 | Unnamed protein product; cytoskeletal gamma-actin (AA 1-375); rat mRNA for cytoplasmic-gamma isoform of actin | 0.63 ± 0.35 | 1.57 ± 0.41 | ↑ 2.5 | 0.0001 |
| AA892851 | Rattus norvegicus transcribed sequences | 0.68 ± 0.28 | 1.63 ± 0.73 | ↑ 2.4 | 0.0073 |
| AI233173 | Expressed in nonmetastatic cells 1 | 0.74 ± 0.32 | 1.77 ± 0.52 | ↑ 2.4 | 0.0005 |
| AA892373 | Syntenin | 0.75 ± 0.26 | 1.71 ± 0.78 | ↑ 2.3 | 0.0098 |
| AA893584 | Rattus norvegicus transcribed sequence with weak similarity to protein ref:NP_500967.1 (C. elegans) | 0.76 ± 0.26 | 1.67 ± 0.51 | ↑ 2.2 | 0.0011 |
| AI072634 | Keratin complex 1, acidic, gene 18 | 0.86 ± 0.33 | 1.86 ± 0.57 | ↑ 2.2 | 0.0011 |
| AI177096 | ESTs, moderate similarity to protein pir:RTHUA (H. sapiens) RTHUA adenine phosphoribosyltransferase (EC 2.4.2.7) | 0.76 ± 0.22 | 1.48 ± 0.33 | ↑ 1.9 | 0.0002 |
| D17445 | Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide | 0.74 ± 0.21 | 1.35 ± 0.26 | ↑ 1.8 | <0.0001 |
| AI639132 | ESTs, similar to RIKEN cDNA 6720467C03 (predicted) | 0.88 ± 0.28 | 1.48 ± 0.31 | ↑ 1.7 | 0.0005 |
Genes were ranked by fold change. Significance was calculated using t-test.