Table 1.
List of Hypermethylated and Downregulated Genes Specific to CCl4 After Excluding the Genes Hypermethylated and Downregulated With DEN (52 genes, ≥ 30% Methylation Ratio: CCl4–CONT)
| % Methylation |
|||||
|---|---|---|---|---|---|
| Location | Accession No. | Gene Symbol | Gene Description | CONT | CCl4 |
| Chr18: 63843080 | NM_001271365 | Ldlrad4 | Low density lipoprotein receptor class A domain containing 4 | 22.0 | 65.9 |
| Chr18: 63843085 | 21.8 | 57.0 | |||
| Chr18: 63843106 | 19.4 | 54.2 | |||
| Chr18: 24928994 | NM_012803 | Proc | Protein C, inactivator of coagulation factors Va and VIIIa | 12.2 | 48.6 |
| Chr5: 25390796 | NM_053977 | Cdh17 | Cadherin 17 | 50.0 | 100.0 |
| Chr5: 116421515 | NM_012988 | Nfia | Nuclear factor I/A | 16.7 | 48.6 |
| Chr8: 48582433 | NM_001191996 | Pdzd3 | PDZ domain containing 3 | 25.0 | 64.3 |
| Chr8: 77398743 | NM_012597 | Lipc | Lipase C, hepatic type | 9.3 | 46.3 |
| Chr8: 77398998 | 33.3 | 68.2 | |||
| Chr13: 50499698 | NM_001108343 | Etnk2 | Ethanolamine kinase 2 | 31.4 | 61.8 |
| Chr13: 75174405 | NM_053571 | Sec16b | SEC16 homolog B, endoplasmic reticulum export factor | 15.4 | 63.9 |
| Chr13: 75174440 | 11.8 | 42.1 | |||
| Chr2: 188449177 | NM_012624 | Pklr | Pyruvate kinase L/R | 0.0 | 33.3 |
| Chr2: 188449199 | 8.7 | 40.7 | |||
| Chr14: 19132230 | NM_172320 | Afm | Afamin | 7.1 | 55.0 |
| Chr3: 101466148 | NM_022629 | Bbox1 | Gamma-butyrobetaine hydroxylase 1 | 9.4 | 53.6 |
| Chr3: 101466153 | 17.2 | 58.6 | |||
| Chr3: 101466160 | 17.2 | 51.9 | |||
| Chr7: 70661881 | NM_022614 | Inhbc | Inhibin subunit beta C | 17.2 | 61.5 |
| Chr15: 18488366 | NM_001107253 | Kctd6 | Potassium channel tetramerization domain containing 6 | 50.0 | 92.3 |
| Chr15: 18488454 | 18.8 | 85.7 | |||
| Chr15: 18488459 | 18.8 | 54.8 | |||
| Chr11: 32551517 | NM_153724 | Rcan1 | Regulator of calcineurin 1 | 35.3 | 90.9 |
| Chr12: 45183219 | NM_001024254 | Taok3 | TAO kinase 3 | 9.1 | 53.8 |
| Chr8: 50558483 | NM_001277264 | Apoa5 | Apolipoprotein A5 | 15.8 | 62.5 |
| Chr2: 84644363 | NM_001008770 | Cmbl | Carboxymethylenebutenolidase homolog | 15.9 | 50.9 |
| Chr2: 84644555 | 6.7 | 47.1 | |||
| ChrX: 156318979 | NM_001109324 | Fam3a | Family with sequence similarity 3, member A | 40.0 | 82.4 |
| Chr6: 8218710 | NM_001270620 | Ppm1b | Protein phosphatase, Mg2+/Mn2+ dependent, 1B | 11.1 | 51.4 |
| Chr1: 65575816 | NM_024143 | Slc27a5 | Solute carrier family 27 member 5 | 22.2 | 63.6 |
| Chr18: 48200786 | NM_001008364 | Snx24 | Sorting nexin 24 | 9.5 | 50.0 |
| Chr10: 59172270 | NM_022690 | Ube2g1 | Ubiquitin-conjugating enzyme E2G 1 | 34.6 | 81.3 |
| Chr1: 176854020 | NM_001107542 | Usp47 | Ubiquitin specific peptidase 47 | 14.7 | 64.0 |
| Chr1: 176854025 | 22.2 | 54.2 | |||
| Chr4: 82703106 | NM_022243 | Hibadh | 3-hydroxyisobutyrate dehydrogenase | 43.9 | 82.6 |
| Chr3: 80013365 | NM_031627 | Nr1h3 | Nuclear receptor subfamily 1, group H, member 3 | 14.3 | 50.0 |
| Chr4: 84741495 | NM_001025063 | Scrn1 | Secernin 1 | 48.1 | 83.3 |
| ChrX: 111888669 | NM_031345 | Tsc22d3 | TSC22 domain family, member 3 | 13.9 | 48.7 |
| Chr2: 188707433 | NM_001106446 | Zbtb7b | Zinc finger and BTB domain containing 7B | 61.5 | 94.7 |
| Chr5: 56577130 | NM_001106646 | Ndufb6 | NADH: ubiquinone oxidoreductase subunit B6 | 12.3 | 45.5 |
| Chr6: 127656730 | NM_001166352 | Serpina11 | Serpin family A member 11 | 13.8 | 46.8 |
| Chr3: 150886421 | NM_181637 | Pigu | Phosphatidylinositol glycan anchor biosynthesis, class U | 30.0 | 61.3 |
| Chr3: 138708890 | NM_019219 | Rbbp9 | RB-binding protein 9, serine hydrolase | 50.0 | 80.0 |
| Chr7: 71035686 | NM_001130537 | Zbtb39 | Zinc finger and BTB domain containing 39 | 0.0 | 36.8 |
| Chr9: 16924520 | NM_053537 | Slc22a7 | Solute carrier family 22 member 7 | 3.7 | 37.9 |
| Chr9: 16924551 | 13.2 | 43.2 | |||
| Chr9: 16924762 | 35.7 | 66.7 | |||
| Chr15: 36917924 | NM_001017375 | Mphosph8 | M-phase phosphoprotein 8 | 9.5 | 43.1 |
| Chr1: 264741143 | NM_001108526 | Sema4g | Semaphorin 4G | 10.0 | 41.0 |
| Chr1: 264741769 | 7.7 | 41.2 | |||
| Chr17: 43661010 | NM_001173434 | Hfe | Homeostatic iron regulator | 9.4 | 40.0 |
| Chr17: 43661014 | 4.0 | 36.8 | |||
| Chr7: 11490192 | NM_001012115 | Creb3l3 | cAMP responsive element binding protein 3-like 3 | 6.1 | 38.5 |
| Chr6: 132761344 | NM_001001509 | Slc25a47 | Solute carrier family 25, member 47 | 18.4 | 50.0 |
| Chr12: 25092252 | NM_001006957 | Eif4h | Eukaryotic translation initiation factor 4H | 60.0 | 90.9 |
| Chr4: 154997088 | NM_001271376 | Cpamd8 | C3 and PZP-like, alpha-2-macroglobulin domain containing 8 | 0.0 | 33.3 |
| Chr4: 154997750 | 24.4 | 60.0 | |||
| Chr4: 154997751 | 20.0 | 80.0 | |||
| Chr20: 27308979 | NM_001100860 | Slc25a16 | Solute carrier family 25 member 16 | 50.0 | 92.9 |
| Chr9: 95501133 | NM_053577 | Spp2 | Secreted phosphoprotein 2 | 10.0 | 52.2 |
| Chr9: 95501143 | 12.5 | 65.0 | |||
| Chr9: 95501151 | 20.0 | 61.1 | |||
| Chr15: 42693578 | NM_022220 | Gulo | Gulonolactone (L-) oxidase | 13.6 | 45.8 |
| Chr15: 42693586 | 7.0 | 44.9 | |||
| Chr9: 65308552 | NM_001106913 | Clk1 | CDC-like kinase 1 | 18.2 | 56.0 |
| Chr9: 65308567 | 47.1 | 78.9 | |||
| Chr1: 199336659 | NM_001109156 | Prss53 | Serine protease 53 | 30.4 | 66.7 |
| Chr16: 21099849 | NM_001127654 | Tm6sf2 | Transmembrane 6 superfamily member 2 | 7.7 | 40.0 |
| Chr16: 21100135 | 0.0 | 31.3 | |||
| Chr1: 81047457 | NM_133323 | Zfp111 | Zinc finger protein 111 | 50.0 | 81.8 |
| Chr3: 94687482 | NM_001029916 | Depdc7 | DEP domain containing 7 | 2.6 | 33.3 |
| Chr20: 7761965 | NM_001134755 | Zfp523 | Zinc finger protein 523 | 25.0 | 61.5 |
| Chr3: 81282906 | NM_001012088 | Pex16 | Peroxisomal biogenesis factor 16 | 0.0 | 30.3 |
| Chr3: 81282923 | 4.2 | 40.0 | |||
| Chr3: 72329199 | NM_001107743 | Slc43a3 | Solute carrier family 43, member 3 | 5.9 | 38.3 |
Abbreviations: CCl4, carbon tetrachloride; CONT, untreated controls; DEN, N-nitrosodiethylamine.