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Table 4 P53 target genes regulated by P53 knockdown

From: P53 in human melanoma fails to regulate target genes associated with apoptosis and the cell cycle and may contribute to proliferation

Accession No.

Gene Symbol

Gene Name

Melan.

IgR3

Mel-RM

Genes regulated similarly by p53 KO in melanocytes and melanoma cells

   

Cell cycle, proliferation or differentiation

   

NM_000389.2

CDKN1A

Cyclin-dependent kinase inhibitor 1A, transcript variant 1

2.68

-

7.12

NM_004864.1

GDF15

Growth differentiation factor 15

3.42

-

6.11

Transcription regulation/signal transduction

   

NM_014376.2

CYFIP2

Cytoplasmic FMR1 interacting protein 2, transcript variant 3

5.11

-

8.88

Genes regulated by p53 KO in melanoma cells but not in melanocytes

   

Apoptosis

     

NM_138578.1

BCL2L11

BCL2-like 1 (Bcl-xL), transcript variant 1

-

-2.06

2.01

NM_033294.2

CASP1

Caspase 1, transcript variant delta

-

-

-4.20

NM_016479.3

SHISA5

Shisa homolog 5

-

-2.30

-

NM_019058.2

DDIT4

DNA-damage-inducible transcript 4

-

-2.56

-

Cell cycle, proliferation or differentiation

   

NM_078467.1

CDKN1A

Cyclin-dependent kinase inhibitor 1A, transcript variant 2

-

-

7.56

NM_000548.3

TSC2

Tuberous sclerosis 2, transcript variant 1

-

-

3.95

Immunity and defense

    

NM_003897.3

IER3

Immediate early response 3

-

-

2.59

Metabolism

     

NM_000603.3

NOS3

Nitric oxide synthase 3

-2.72

10.65

-

Transcription regulation/signal transduction

   

NM_001037333.1

CYFIP2

Cytoplasmic FMR1 interacting protein 2, transcript variant 1

-

-

14.63

NM_152546.1

SRFBP1

Serum response factor binding protein 1

-

-

-2.12

NM_004559.3

YBX1

Y box binding protein 1

-

-2.75

-

Transport

     

NM_000593.5

TAP1

Transporter 1

-

2.07

-

Unknown function

     

NM_182915.2

STEAP3

STEAP family member 3, transcript variant 1

-

4.64

-2.94

Genes regulated by p53 KO in melanocytes but not in melanoma

   

Apoptosis

     

NM_001040619.1

ATF3

Activating transcription factor 3, transcript variant 4

-5.30

-

-

NM_001008925.1

RCHY1

Ring finger and CHY zinc finger domain containing 1, transcript variant 2

-12.23

-

-

NM_005427.1

TP73

Tumor protein p73

10.54

-

2.84

Cell cycle, proliferation or differentiation

   

NM_001012271.1

BIRC51

Baculoviral IAP repeat-containing 5, transcript variant 3

-18.95

-

-

NM_004701.2

CCNB2

Cyclin B2

-3.17

-

-

NM_057735.1

CCNE21

Cyclin E2, transcript variant 2

-5.73

-

-

NM_001786.2

CDC21

Cell division cycle 2, transcript variant 1

-8.42

-

-

NM_022809.2

CDC25C1

Cell division cycle 25 homolog C, transcript variant 2

-9.40

-

-

NM_001259.5

CDK6

Cyclin-dependent kinase 6

2.15

-

-

NM_058195.2

CDKN2A1

Cyclin-dependent kinase inhibitor 2A, transcript variant 4

-12.78

-

-

NM_006622.2

PLK2

Polo-like kinase 2

18.00

-8.19

-

NM_014454.1

SESN1

Sestrin 1

2.69

-

-

Immunity and defense

    

NM_003246.2

THBS1

Thrombospondin 1

-18.25

-

-

NM_003247.2

THBS2

Thrombospondin 2

2.21

-

-

NM_033550.3

TP53RK

TP53 regulating kinase

-2.08

-

-

Transcription regulation/signal transduction

   

NM_000376.2

VDR

Vitamin D receptor, transcript variant 1

-20.88

-

-

  1. Fold change in mRNA expression of P53 targets genes regulated in melanocyte (Melan.), IgR3 or Mel-RM cell lines in which P53 expression had been inhibited compared to cells expressing normal levels of P53 (control shRNA versus P53 shRNA). Genes that were significantly different (> 2-fold change, p ≤ 0.05 and FDR = 5.0%) in comparisons of control shRNA with P53 shRNA are shown in bold, while genes which were not regulated (< 2-fold change) are represented by a hyphen (-). 1Genes found to be differentially expressed between melanoma cells and normal cells.