Table 1.
Differential expression statistics for core genes in TNFα-NFκb signaling between 8505c-WTp53 and 8505c parental cells
| Gene | Raw P-value | Avg Log2FC | pct.WT | pct.Parent | Adj. P-value |
|---|---|---|---|---|---|
| CEBPD | 0 | -2.5915813 | 0.946 | 0.99 | 0 |
| NAMPT | 0 | -1.4692919 | 0.921 | 0.979 | 0 |
| NFKBIA | 0 | -2.0753695 | 0.88 | 0.963 | 0 |
| PTX3 | 0 | -3.0933264 | 0.515 | 0.898 | 0 |
| TNFAIP3 | 0 | -1.5424508 | 0.747 | 0.884 | 0 |
| CXCL2 | 0 | -2.0364498 | 0.585 | 0.838 | 0 |
| CXCL3 | 0 | -1.8039134 | 0.487 | 0.805 | 0 |
| PLPP3 | 0 | -1.3903519 | 0.328 | 0.782 | 0 |
| IL6 | 0 | -2.2673918 | 0.205 | 0.706 | 0 |
| TNF | 0 | -2.5374013 | 0.044 | 0.61 | 0 |
| G0S2 | 9.52E-317 | -2.0542562 | 0.576 | 0.865 | 3.71E-312 |
| ID2 | 0 | -0.9355528 | 0.022 | 0.497 | 0 |
| SOCS3 | 1.22E-286 | -1.6612173 | 0.445 | 0.77 | 4.76E-282 |
| CXCL1 | 5.77E-224 | -1.2845055 | 0.603 | 0.83 | 2.25E-219 |
| RIPK2 | 6.10E-197 | -0.8597438 | 0.696 | 0.892 | 2.38E-192 |
| IRF1 | 1.61E-198 | -1.4097428 | 0.572 | 0.767 | 6.29E-194 |
| IER3 | 4.99E-161 | -1.1702329 | 0.899 | 0.943 | 1.95E-156 |
| SOD2 | 1.98E-156 | -1.2099059 | 0.923 | 0.965 | 7.71E-152 |
| BCL6 | 4.04E-227 | -0.8547331 | 0.25 | 0.623 | 1.58E-222 |
| JUN | 4.40E-138 | -0.8528791 | 0.953 | 0.983 | 1.71E-133 |
| TNC | 3.65E-137 | -0.7571754 | 0.893 | 0.964 | 1.42E-132 |
| ZFP36 | 5.27E-136 | -1.3147865 | 0.903 | 0.931 | 2.05E-131 |
| TNFAIP8 | 2.09E-170 | -0.6956557 | 0.376 | 0.71 | 8.13E-166 |
| MYC | 8.39E-129 | -0.780564 | 0.805 | 0.917 | 3.27E-124 |
| MARCKS | 3.79E-109 | -0.5002077 | 0.947 | 0.981 | 1.48E-104 |
| SMAD3 | 6.60E-126 | -0.5205715 | 0.496 | 0.774 | 2.57E-121 |
| CCNL1 | 8.76E-105 | -0.6105337 | 0.802 | 0.918 | 3.41E-100 |
| NINJ1 | 1.24E-109 | -0.7184984 | 0.611 | 0.795 | 4.83E-105 |
| BCL2A1 | 5.60E-108 | -0.6656719 | 0.441 | 0.71 | 2.18E-103 |
| VEGFA | 5.24E-97 | -0.6462843 | 0.498 | 0.746 | 2.04E-92 |
| IL1B | 1.41E-145 | -0.3528941 | 0.193 | 0.488 | 5.50E-141 |
| NFKB1 | 1.38E-90 | -0.6491981 | 0.575 | 0.768 | 5.37E-86 |
| DUSP1 | 1.65E-70 | -0.6861371 | 0.991 | 0.991 | 6.45E-66 |
| ATP2B1 | 3.46E-77 | -0.6608909 | 0.779 | 0.886 | 1.35E-72 |
| CEBPB | 6.94E-66 | -0.4675741 | 0.881 | 0.951 | 2.70E-61 |
| BCL3 | 5.79E-71 | -0.6245673 | 0.674 | 0.797 | 2.26E-66 |
| CCL20 | 2.49E-141 | -1.4003929 | 0.081 | 0.33 | 9.72E-137 |
| B4GALT5 | 7.86E-64 | -0.312425 | 0.564 | 0.768 | 3.06E-59 |
| IFNGR2 | 1.96E-53 | -0.3199083 | 0.826 | 0.926 | 7.63E-49 |
| NFIL3 | 2.40E-64 | -0.5343927 | 0.551 | 0.731 | 9.36E-60 |
| IL1A | 2.52E-116 | -0.750101 | 0.126 | 0.373 | 9.80E-112 |
| TANK | 5.18E-57 | -0.3006104 | 0.604 | 0.788 | 2.02E-52 |
| ZC3H12A | 3.71E-70 | -0.4791044 | 0.354 | 0.579 | 1.45E-65 |
| B4GALT1 | 4.02E-46 | -0.3784296 | 0.716 | 0.83 | 1.57E-41 |
| KLF9 | 3.65E-100 | -0.395157 | 0.112 | 0.328 | 1.42E-95 |
| BIRC2 | 6.62E-48 | -0.1877034 | 0.516 | 0.696 | 2.58E-43 |
| TNIP1 | 3.08E-37 | -0.4036281 | 0.859 | 0.915 | 1.20E-32 |
| PNRC1 | 6.75E-35 | -0.5489594 | 0.916 | 0.905 | 2.63E-30 |
| FOSL1 | 7.54E-35 | -0.1783856 | 0.928 | 0.837 | 2.94E-30 |
| NFKB2 | 5.61E-43 | -0.3218467 | 0.454 | 0.624 | 2.19E-38 |
| BIRC3 | 6.07E-77 | -0.4626289 | 0.131 | 0.328 | 2.37E-72 |
| FOSL2 | 8.09E-29 | -0.2154694 | 0.754 | 0.86 | 3.15E-24 |
| ZBTB10 | 6.54E-61 | -0.3388142 | 0.172 | 0.339 | 2.55E-56 |
| EHD1 | 1.68E-25 | -0.2147203 | 0.748 | 0.851 | 6.54E-21 |
| RELB | 8.06E-26 | -0.2419431 | 0.65 | 0.769 | 3.14E-21 |
| SERPINE1 | 2.53E-22 | -0.2691889 | 0.866 | 0.785 | 9.85E-18 |
| PDE4B | 3.15E-24 | -0.2330746 | 0.661 | 0.775 | 1.23E-19 |
| PTGER4 | 1.91E-65 | -0.2494643 | 0.077 | 0.229 | 7.42E-61 |
| IL6ST | 5.12E-20 | -0.1931439 | 0.793 | 0.874 | 2.00E-15 |
| LIF | 1.49E-64 | -0.3495302 | 0.071 | 0.218 | 5.82E-60 |
| EFNA1 | 6.95E-27 | -0.1795794 | 0.458 | 0.596 | 2.71E-22 |
| TRIP10 | 1.02E-19 | -0.0830324 | 0.771 | 0.862 | 3.98E-15 |
| DENND5A | 3.23E-22 | -0.1084268 | 0.466 | 0.585 | 1.26E-17 |
| CSF1 | 7.86E-33 | -0.3920333 | 0.243 | 0.354 | 3.06E-28 |
| TGIF1 | 7.59E-16 | -0.2247837 | 0.842 | 0.877 | 2.96E-11 |
| TIPARP | 2.83E-17 | -0.2214694 | 0.667 | 0.764 | 1.10E-12 |
| REL | 8.33E-28 | -0.2483838 | 0.253 | 0.364 | 3.25E-23 |
| NFKBIE | 6.67E-32 | -0.2463917 | 0.225 | 0.306 | 2.60E-27 |
| STAT5A | 7.54E-33 | -0.1834649 | 0.147 | 0.27 | 2.94E-28 |
| TNFAIP2 | 8.51E-68 | -0.2869743 | 0.014 | 0.111 | 3.32E-63 |
| BTG3 | 3.25E-13 | -0.1251713 | 0.644 | 0.731 | 1.27E-08 |
| GEM | 8.59E-11 | -0.170898 | 0.869 | 0.912 | 3.35E-06 |
| CLCF1 | 1.95E-21 | -0.0866145 | 0.216 | 0.313 | 7.61E-17 |
| GCH1 | 3.32E-40 | -0.2598598 | 0.055 | 0.139 | 1.29E-35 |
| NFE2L2 | 3.98E-10 | -0.1231324 | 0.869 | 0.915 | 1.55E-05 |
| ICAM1 | 5.88E-12 | -0.3088566 | 0.499 | 0.572 | 2.29E-07 |
| ABCA1 | 1.13E-38 | -0.1694072 | 0.023 | 0.096 | 4.42E-34 |
| GADD45B | 4.27E-09 | -0.1885803 | 0.756 | 0.693 | 0.00016645 |
| TRAF1 | 2.06E-24 | -0.1549647 | 0.044 | 0.113 | 8.03E-20 |
| PPP1R15A | 2.24E-07 | -0.1055692 | 0.939 | 0.922 | 0.00874136 |
| SQSTM1 | 1.24E-06 | -0.1282598 | 0.999 | 0.998 | 0.04813949 |
| TNFAIP6 | 1.71E-26 | -0.5904362 | 0.016 | 0.061 | 6.68E-22 |
| JUNB | 1.81E-06 | -0.1341125 | 0.955 | 0.947 | 0.07061945 |
| SLC2A6 | 9.68E-11 | -0.1229614 | 0.156 | 0.214 | 3.77E-06 |
| MAP3K8 | 1.28E-09 | -0.0898817 | 0.224 | 0.219 | 4.98E-05 |
| IFIT2 | 3.47E-12 | -0.1058913 | 0.06 | 0.111 | 1.35E-07 |
| TNFRSF9 | 4.91E-18 | -0.0693328 | 0.016 | 0.056 | 1.91E-13 |
Raw p-value represents the p-value calculated using the MAST algorithm in Seurat. Avg Log2FC represents the average log2 fold change calculated between 8505c-WTp53 (positive fold change) and the 8505C parent. Pct.WT indicates the fraction of cells within the 8505C-WTp53 sample that expressed the gene. Pct.Parent indicates the fraction of cells within the 8505C parental sample that expressed the gene in question. Adjusted p-value is calculated from the raw p-value using False Discovery Rate.