Table 1

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

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 G₁

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

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.

Barenco et al. Genome Biology 2006 7:R25   doi:10.1186/gb-2006-7-3-r25