Table 4.
Nonspecific cold response genes
| Functional Class | Common name(s) | Identifier | Expression ratio cold/control | ||
|---|---|---|---|---|---|
| HepG2 Cells (geometric mean) | THP-1 Cells (geometric mean, 95% CI) | ||||
| Decreased by cold | |||||
| Apoptosis | TIA1; TIA1 cytotoxic granule-associated RNA-binding protein | AL046419 | 0.46 | 0.48 | (0.39–0.59) |
| DNA conformation and repair | RAD50; RAD50 homolog (Saccharomyces cerevisiae) | NM_005732 | 0.33 | 0.49 | (0.40–0.59) |
| HSPs, chaperonins, and co-chaperonins | HSPA1A; Heat shock 70 kD protein 1A; HSP 70-1 | NM_005345 | 0.41 | 0.37 | (0.26–0.53) |
| NM_005345 | 0.45 | 0.36 | (0.25–0.50) | ||
| HSPH1; Heat shock 105/110 kDa protein 1; HSP105B; heat shock 105 kD; HSP 105; KIAA 0201 | NM_006644 | 0.45 | 0.29 | (0.25–0.33) | |
| Membrane protein | TM7SF3; transmembrane 7 superfamily member 3 | NM_016551 | 0.32 | 0.41 | (0.27–0.64) |
| Membrane traffic and receptor sorting | SORL1; Sortilin-related receptor, L(DLR class) A repeats-containing | AV728268 | 0.29 | 0.49 | (0.40–0.62) |
| Metabolism and biosynthesis | HIBCH; 3-hydroxyisobutyryl-coenzyme A hydrolase | NM_014362 | 0.50 | 0.44 | (0.23–0.85) |
| GART; phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase; PGFT; PRGS | NM_000819 | 0.43 | 0.46 | (0.36–0.60) | |
| Unknown | CHORDC1; cyteine and histidine-rich domain (CHORD)-containing, zinc binding protein 1; CHP1 | NM_012124 | 0.45 | 0.37 | (0.27–0.50) |
| KIAA0436; putative prolyl oligopeptidase; FLJ16627 | AW000954 | 0.48 | 0.44 | (0.31–0.63) | |
| BTN3A3; butyrophilin, subfamily 3, member A3 | NM_006994 | 0.48 | 0.45 | (0.29–0.68) | |
| UBPH; similar to ubiquitin binding protein; ubiquitin binding protein homology | NM_019116 | 0.46 | 0.49 | (0.36–0.67) | |
| Increased by cold | |||||
| Cell growth, proliferation, and differentiation | PPM1B; protein phosphatase 1B (formerly 2C), magnesium-dependent, beta-isoform | AJ271832 | 2.12 | 2.20 | (1.63–2.96) |
| CTNNBIP1; Catenin, beta-interacting protein 1; ICAT | NM_020248 | 2.24 | 4.16 | (2.41–7.16) | |
| Cytoskeleton | TMEM4; transmembrane protein 4; MSAP; MIR-interacting saposin-like protein | BC001027 | 2.56 | 2.06 | (1.69–2.51) |
| Protein degradation | PSMD11; proteasome (prosome, macropain) 26S subunit, non-ATPase, 11 | BF432873 | 16.20 | 5.66 | (2.37–13.54) |
| RNA binding | RBM3; RNA binding motif (RNP1, RPM) protein 3 | NM_006743 | 2.50 | 2.10 | (1.49–2.97) |
| CIRBP; cold inducible RNA binding protein; CIRP | NM_001280 | 3.54 | 2.72 | (2.22–3.35) | |
| NM_001280 | 4.76 | 3.72 | (2.91–4.76) | ||
| Signal transduction | NUDT3; nudix (nucleoside diphosphate linked moiety X)-type motif 3 | AK025759 | 2.08 | 2.13 | (1.86–2.45) |
| Unknown | C6orf62; chromosome 6 open reading frame 62 | AW972292 | 2.54 | 3.63 | (2.29–5.75) |
| DKFZP434C171; DKFZP434C171 protein | AL080169 | 4.60 | 2.57 | (1.63–4.07) | |
| CDNA FLJ11898 fis, clone HEMBA1007322 | AK021960 | 4.46 | 4.90 | (2.51–9.56) | |
| Homo sapiens (clone B3B3E13) Huntington’s disease candidate region mRNA fragment | L37198 | 5.31 | 8.07 | (3.81–17.12) | |
Included are all genes that showed statistically significant, twofold or greater, changes in expression in both HepG2 and THP-1 cells during cold exposure and that also met the post-hoc filter criteria of the respective studies