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Table 1 Top 50 genes predicted by hidden variable dynamic modeling to be p53 regulated, ranked by sensitivity Z score

From: Ranked prediction of p53 targets using hidden variable dynamic modeling

Gene title Gene symbol Affymetrix identifier Model score (M) Sensitivity (Z score) RNAi validation score
Damage-specific DNA binding protein 2, 48 kDa DDB2 203409_at 18.74 18.24 10.74
CD38 antigen (p45) CD38 205692_s_at 36.69 14.77 9.02
Ferredoxin reductase FDXR 207813_s_at 79.82 13.19 7.72
Hypothetical protein FLJ22457 FLJ22457 221081_s_at 60.45 11.01 6.33
Tripartite motif-containing 22 TRIM22 213293_s_at 41.36 10.99 6.07
Carnitine O-octanoyltransferase CROT 204573_at 84.40 10.98 3.80
Glutaminase 2 (liver, mitochondrial) GLS2 205531_s_at 42.83 10.28 2.52
Leucine-rich repeats and death domain containing LRDD 219019_at 78.80 9.90 3.09
Hect domain and RLD 5 HERC5 219863_at 37.65 9.55 1.91
Cyclin G 1 CCNG1 208796_s_at 17.04 9.37 5.18
BCL2-interacting killer BIK 205780_at 19.43 9.35 6.57
Activating signal cointegrator 1 complex subunit 3 ASCC3 212815_at 60.34 9.26 5.93
Sestrin 1 SESN1 218346_s_at 8.37 9.25 3.90
p53 target zinc finger protein WIG1 219628_at 41.33 9.19 3.70
Tumor necrosis factor receptor superfamily, member 10b TNFRSF10B 209295_at 27.34 9.05 6.52
Chromosome 6 open reading frame 4 C6orf4 215411_s_at 86.45 8.81 6.64
Cyclin-dependent kinase inhibitor 1A(p21) CDKN1A 202284_s_at 24.98 8.40 8.07
Etoposide induced 2.4 mRNA EI24/PIG8 216396_s_at 88.04 8.20 4.09
Mitogen-activated protein kinase kinase kinase kinase 4 MAP4K4 206571_s_at 62.88 7.54 1.88
Lymphoid-restricted membrane protein LRMP 204674_at 26.92 7.36 3.40
Xeroderma pigmentosum, group C XPC 209375_at 43.09 7.36 5.80
TNF (ligand) superfamily, member 4 (Ox40L) TNFSF4 207426_s_at 34.73 7.15 5.26
Human cleavage/polyadenylation specificity factor CPSF1 33132_at 77.75 7.09 -1.44
AMP-activated protein kinase, beta 1 subunit PRKAB1 201834_at 25.72 7.01 6.30
Transducer of ERBB2, 1 TOB1 202704_at 92.69 6.79 5.78
p53-inducible cell-survival factor P53CSV 218403_at 48.33 6.50 7.75
Sortilin-related receptor, L(DLR class) SORL1 203509_at 15.66 6.34 1.70
Fas (TNF receptor superfamily, member 6) FAS 216252_x_at 44.31 6.23 4.54
Ribonucleotide reductase M1 polypeptide RRM1 201477_s_at 46.58 6.19 0.41
Archaemetzincins-2 AMZ2 218167_at 37.48 6.16 1.22
Galactose-3-O-sulfotransferase 4 GAL3ST4 219815_at 38.62 5.97 3.12
Growth arrest and DNA-damage-inducible, alpha GADD45A 203725_at 84.23 5.89 11.05
Hypothetical protein FLJ11259 FLJ11259 218627_at 7.23 5.87 3.56
Major histocompatibility complex, class I, B HLA-B 209140_x_at 89.77 5.79 0.63
Testis specific, 10 TSGA10 220623_s_at 20.85 5.67 0.47
Hypothetical protein MDS025 MDS025 218288_s_at 31.35 5.66 2.38
TP53 activated protein 1 TP53AP1 209917_s_at 22.22 5.65 4.05
Leukemia inhibitory factor LIF 205266_at 14.86 5.62 3.42
Interferon stimulated exonuclease gene 20 kDa-like 1 ISG20L1 219361_s_at 48.55 5.56 5.43
Lymphoid-restricted membrane protein LRMP 35974_at 42.06 5.56 3.69
Integral membrane protein 2B ITM2B 217732_s_at 20.25 5.52 -0.19
Tumor necrosis factor receptor superfamily, member 10b TNFRSF10B 210405_x_at 46.05 5.52 1.69
REV3-like, catalytic subunit DNA polymerase zeta REV3L 208070_s_at 65.17 5.45 6.73
TP53 activated protein 1 TP53AP1 210886_x_at 30.15 5.42 2.88
Leucine-rich repeats and death domain containing LRDD 221640_s_at 55.27 5.31 1.54
AMP-activated protein kinase, beta 1 PRKAB1 201835_s_at 25.45 5.27 5.92
Nonmetastatic cells 1 (NM23A) NME1 201577_at 83.39 5.15 3.38
Tubulin, gamma 1 TUBG1 201714_at 41.74 5.09 0.02
Solute carrier family 7, member 6 SLC7A6 203579_s_at 18.59 4.98 2.56
RAD51 homolog RAD51C 209849_s_at 21.02 4.92 1.11
  1. Low model scores and higher Z score constitute better model fits. The data are compared with validation scores for gene sensitivity to small interfering (si)RNAp53 (higher = better). Plain text indicates genes not previously recorded as p53 targets. Bold text indicates experimentally demonstrated p53 targets.