Table 1 Functional annotation (biological process) and mRNA fold change of selected TSA (6 and 12 h) down- and up-regulated genes
Gene symbol | Fold change 0 to 6 hrs TSA | Fold change 0 to 12 hrs TSA | F-test_p-value | Function (biological process) |
|---|---|---|---|---|
Inhbb | -11.91 | -11.93 | 2.33E-08 | Growth |
Sall1 | -10.95 | -16.09 | 1.06E-05 | System development |
Nanog | - 9.87 | -15.24 | 2.27E-05 | Stem cell division |
Gdf3 | - 8.11 | -12.56 | 9.83E-07 | Growth |
Lefty2 | - 5.7 | -16.58 | 6.87E-06 | Development |
Gli2 | - 5.61 | -8.38 | 4.34E-08 | Regulation of transcription, DNA-dependent |
Klf2 | - 4.73 | -10.39 | 4.48E-08 | Positive regulation of transcription |
Zfp42/Rex | - 4.62 | -5.00 | 1.01E-05 | Regulation of transcription, DNA-dependent |
Foxd3 | - 4.59 | -4.66 | 3.74E-05 | Regulation of transcription, DNA-dependent |
Tbx3 | - 4.46 | -6.10 | 9.29E-05 | Development, cell aging, negative regulation of transcription |
Eras | -4.22 | -5.94 | 3.11E-06 | Small GTPase mediated signal transduction |
Nr0b1 | -4.11 | -13.39 | 1.70E-06 | Negative regulation of transcription |
Rif1 | -4.03 | -3.82 | 1.54E-04 | Response to stress, chromosome maintenance |
Lefty1 | -3.66 | -9.11 | 1.13E-06 | Development, cell growth |
Suv39h1 | -3.50 | -4.87 | 2.38E-06 | Chromatin assembly or disassembly, chromatin modification |
Sall4 | -3.47 | -3.34 | 2.47E-03 | Stem cell pluripotency |
Utx | -3.61 | -2.81 | 1.68E-04 | Chromatin modification |
Pcaf | -3.29 | -5.15 | 3.79E-05 | Regulation of transcription, DNA-dependent |
Bmi1 | -3.39 | -1.80 | 2.39E-06 | Chromatin modification, somatic stem cell division, development |
Klf4 | -3.02 | -4.09 | 1.59E-06 | Regulation of transcription, DNA-dependent |
Fgf4 | -2.95 | -3.47 | 2.23E-06 | Stem cell maintenance, regulation of cell cycle |
Zic3 | -2.87 | -3.28 | 2.38E-05 | Regulation of transcription |
Esrrb | -2.64 | -4.26 | 2.96E-04 | Regulation of transcription, DNA-dependent |
Sox2 | -2.43 | -1.63 | 2.03E-04 | Cell fate specification, regulation of transcription, DNA-dependent |
Jmjd1a | -2.20 | -2.94 | 8.14E-08 | Chromatin modification |
Suz12 | -2.10 | -1.87 | 1.58E-03 | Chromatin modification |
Jmjd2c | -2.20 | -2.27 | 2.28E-04 | Chromatin modification |
Tcl1 | -1.85 | -3.13 | 1.09E-04 | Regulation of transcription |
Eed | -1.80 | -2.05 | 2.37E-05 | Imprinting |
Cbx5 | -1.42 | -2.21 | 1.76E-03 | Chromatin assembly or disassembly |
Pou5f1 | -1.09 | -1.74 | 6.04E-04 | Stem cell maintenance |
Egr1 | 28.37 | 40.75 | 1.53E-06 | Regulation of transcription, DNA-dependent |
H1f0 | 13.39 | 22.33 | 4.45E-06 | Nucleosome assembly |
Hist1h1c | 12.34 | 17.88 | 1.01E-03 | Nucleosome assembly, chromosome organization and biogenesis |
Pdgfrb | 9.78 | 10.77 | 3.98E-06 | Protein tyrosine kinase signaling pathway |
Fos | 8.02 | 11.35 | 9.00E-07 | Regulation of cell cycle, regulation of transcription, neurogenesis |
Ndrg4 | 7.87 | 8.15 | 9.85E-06 | Cell differentiation, development |
Hist3h2a | 5.98 | 11.17 | 7.97E-04 | Nucleosome, chromosome |
Creg1 | 4.65 | 5.32 | 2.84E-06 | Regulation of transcription, DNA-dependent |
Ttll1 | 4.47 | 5.13 | 7.84E-06 | Protein modification |
Nnat | 4.05 | 8.37 | 1.04E-03 | Development |
Hoxa1 | 4.05 | 5.34 | 8.61E-06 | Anterior/posterior pattern formation, hindbrain development |
Edg3 | 3.88 | 4.82 | 1.53E-04 | G-protein signaling, positive regulation of cell proliferation |
Cacna1b | 3.83 | 7.21 | 8.76E-04 | Neurotransmitter secretion, regulation of heart contraction |
Idb2 | 3.49 | 7.12 | 3.42E-04 | Development, heart development, lymph gland development |
Hoxb13 | 3.33 | 4.45 | 6.74E-06 | Pattern specification, organogenesis, regulation of growth |
Cacna1h | 3.15 | 5.50 | 1.45E-05 | Calcium ion transport |
Cbx4 | 3.14 | 4.85 | 5.13E-05 | Chromatin assembly or disassembly, chromatin modification |
Sirt7 | 2.69 | 2.68 | 1.05E-04 | Chromatin silencing, regulation of transcription, DNA-dependent |
Mlf1 | 2.29 | 12.44 | 6.88E-05 | Cell differentiation |
Ctgf | 2.12 | 9.88 | 6.80E-04 | Ossification, angiogenesis, regulation of cell growth, cell adhesion |
Cbx2 | 1.81 | 2.00 | 6.16E-05 | Chromatin assembly or disassembly, chromatin modification |
Wif1 | 1.41 | 6.33 | 2.38E-06 | Negative regulation of Wnt receptor signaling pathway |