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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.