Table 2.
Top 25 most significant p53-miRs that target known apoptotic genes (n = 685). 18/25 apoptotic p53-miRs have been reported in literature as differentially regulated in various cancerous tissues or cancer cell lines (see last column). The p-values represent the probability of a p53-miR targeting an apoptotic gene purely by chance.
| miRNA | Total Number of Predicted Targets | Apoptosis Genes (n = 685) | Genes | p-value | Cancer miRNA |
| hsa-miR-30b | 1054 | 64 | ABL1, ACTN1, ACVR1, ARHGEF6, ATG5, BCL2, BCL2L11, BCL6, BDNF, BECN1, BIRC6, BNIP3L, CASP3, CLCF1, CUL2, EBAG9, ELMO1, FOXO3A, FXR1, GAS2, GCLC, HSPA5, IFI16, IFNG, IHPK3, IL1A, JAG2, MAGI3, MAL, MAP3K5, MNT, MYBL2, NOTCH1, PAK1, PAK7, PAWR, PAX3, PDCD10, PDCD5, PIK3R2, PLAGL2, PPP2R1B, PRLR, PSEN2, RARG, RASA1, RHOB, RNF7, SGK3, SIAH2, SIRT1, SMNDC1, SNCA, SOCS3, SON, SOX9, TESK2, TIA1, TIMP3, TNFSF9, TP53INP1, UNC5C, UNC5D, VCP | 1.50E-12 | Yes |
| hsa-miR-30c | 1040 | 61 | ABL1, ACTN1, ACVR1, ARHGEF6, ATG5, BCL2, BCL2L11, BCL6, BDNF, BECN1, BNIP3L, CASP3, CLCF1, CUL2, EBAG9, ELMO1, FOXO3A, FXR1, GAS2, GCLC, HSPA5, IFI16, IHPK3, IL1A, JAG2, MAGI3, MAL, MAP3K5, MNT, MYBL2, NOTCH1, PAK1, PAK7, PAWR, PAX3, PDCD10, PDCD5, PIK3R2, PLAGL2, PPP2R1B, PRLR, PSEN2, RARG, RASA1, RHOB, RNF7, SGK3, SIAH2, SIRT1, SMNDC1, SNCA, SOCS3, SON, SOX9, TIA1, TIMP3, TNFSF9, TP53INP1, UNC5C, UNC5D, VCP | 2.16E-11 | Yes |
| hsa-miR-30d | 1034 | 57 | ABL1, ACTN1, ACVR1, ARHGEF6, ATG5, BCL2, BCL2L11, BCL6, BDNF, BECN1, BNIP3L, CARD8, CASP3, CLCF1, CUL2, EBAG9, ELMO1, FOXO3A, FXR1, GAS2, HSPA5, IFI16, IHPK3, IL1A, IL31RA, JAG2, MAL, MAP3K5, MNT, MYBL2, NOTCH1, PAK1, PAK7, PAWR, PAX3, PDCD10, PIK3R2, PLAGL2, PPP2R1B, PRLR, PSEN2, RARG, RASA1, RHOB, SGK3, SIAH2, SIRT1, SMNDC1, SOCS3, SON, SOX9, TIMP3, TNFSF9, TP53INP1, UNC5C, UNC5D, VCP | 1.03E-09 | Yes |
| hsa-miR-495 | 389 | 31 | ACTN2, AKT1, ATOH1, AVEN, BAG4, CARD6, CASP2, CTNNAL1, DDX41, DIDO1, EEF1E1, EIF2AK2, FOXO3A, IAPP, IGFBP3, MTL5, NOTCH2, OPA1, PAWR, PDCD10, PHLPP, PIM2, RTN4, SGK, SMNDC1, SOX9, STK17A, TGFB2, TMEM23, TNFRSF9, TXNDC5 | 2.17E-09 | No |
| hsa-miR-106a | 751 | 44 | ACIN1, ACVR1B, APBB2, APP, BCL2L11, BCL2L2, BCL6, BIRC4, BNIP2, BTG1, CASP6, CASP8, CDKN1A, CFLAR, COL4A3, DAPK2, DEDD, DNASE2, DNM2, E2F1, EGLN3, EP300, FASTK, FOXL2, HIF1A, INHBA, LALBA, MAP3K5, PAK7, PIK3R1, PLAGL2, PPARD, PPP2CA, PTEN, PURB, SQSTM1, STK17B, TAOK2, TAX1BP1, TIMP3, TMEM23, TNFRSF21, TOPORS, TP53INP1 | 1.54E-08 | Yes |
| hsa-miR-124a | 1333 | 62 | ACTN4, AHR, AKT1S1, ANXA5, APBB2, APPBP1, ARHGDIA, AXIN1, BAG3, BCL2L11, BCL6, BECN1, CCL2, CDKN1A, CUL5, DHCR24, DNM2, DPF2, ERN1, FXR1, GAS2, GLO1, HIP1, HTATIP2, IHPK2, JAG2, LITAF, MITF, NR4A1, PDCD10, PDCD6, PEA15, PEG3, PIK3CA, PIM1, PLAGL2, PPM1F, PPP1R13L, PROC, PURB, RAF1, RARG, RASSF5, RFFL, RHOT1, RIPK2, RP6-213H19.1, SEMA6A, SFRP5, SGK, SGPL1, SGPP1, SH3KBP1, SIRT1, SLK, SOX9, SPHK1, STK4, TMEM23, TP53INP1, TRIB3, ZDHHC16 | 1.06E-07 | Yes |
| hsa-miR-20b | 751 | 42 | ACIN1, ACVR1B, APBB2, APP, BCL2L11, BCL2L2, BCL6, BIRC4, BNIP2, BTG1, CASP6, CASP8, CASP8AP2, CDKN1A, COL4A3, DAPK2, DEDD, DNASE2, DNM2, E2F1, EGLN3, EP300, FASTK, FOXL2, HIF1A, IKIP, LALBA, MAP3K5, PAK7, PIK3R1, PLAGL2, PPP1R13L, PPP2CA, PTEN, PURB, SQSTM1, TAOK2, TIMP3, TMEM23, TNFRSF21, TOPORS, TP53INP1, | 1.18E-07 | No |
| hsa-miR-24 | 445 | 30 | ACVR1B, ADAMTSL4, ADORA1, BCL2L11, BCL2L12, BCL2L2, CARD10, CD28, CDK5, CIDEA, CLCF1, CSF2, FASLG, IHPK2, LALBA, MNT, PAK7, PCSK9, PEA15, PIM1, PIM2, PURB, RARG, RASA1, SPHK1, TMEM23, TNFRSF19, TNFRSF1B, TP53INP1, TRAF7, | 1.66E-07 | Yes |
| hsa-miR-27a | 579 | 32 | ANXA5, AXUD1, BAG2, BIRC4, BNIP3L, BTG1, CDK5R1, CFDP1, EI24, FAIM, FOXO1A, HIP1, IFNG, IGF1, IL10, JMY, MITF, MLH1, NEK6, NGFR, NGFRAP1, PHB, PLAGL2, PRKRA, RASSF5, RYBP, SAP30BP, SEMA6A, SERINC3, SFRP1, TMEM23, ZNF443 | 4.86E-06 | Yes |
| hsa-miR-195 | 766 | 38 | ALOX12, APP, ARHGDIA, BAG5, BCAP29, BCL2, BCL2L2, BDNF, BFAR, CARD10, CBX4, CD28, CD40, CDK5R1, CUL2, DEDD, MNT, PAK7, PCBP4, PDCD4, PIM1, PLAGL1, PPP2R1A, PTH, PURB, RAD9A, RAF1, RASSF5, RIPK2, RYBP, SEMA6A, SGK, SIAH1, SNCA, SNRK, SON, UBE4B, ZDHHC16, | 8.00E-06 | Yes |
| hsa-miR-182 | 485 | 28 | ACVR1, ARHGDIA, BAG4, BCL2, BCL2L12, BDNF, CFL1, CUL5, ELMO1, EP300, FOXO3A, FXR1, MITF, NCKAP1, NPM1, PIK3R1, PRKCE, RARG, RASA1, RNF130, RRAGA, RTN4, SERPINB2, TMEM23, TOPORS, TP53INP1, UNC5D, ZAK | 8.50E-06 | No |
| hsa-miR-153 | 464 | 27 | ACTN4, ACVR1B, APBB2, APP, ATF5, ATG5, BCL2, CIB1, FOXO1A, GRIK2, IGF1R, LCK, MAP3K7, MITF, POU4F1, PRKAA1, RASA1, RTN4, SGK3, SH3KBP1, SIRT1, SNCA, SOCS2, SPHK2, TESK2, TIAL1, TP53INP1 | 1.06E-05 | Yes |
| hsa-miR-200a | 634 | 33 | APBB2, ATF5, BAG2, CROP, CUL3, FOXO3A, HGF, IL1A, MAL, MAP3K7, MSH2, NME1, PAX3, PDCD4, PERP, PHLPP, PLAGL2, POU4F1, PPP2CA, PRKCE, SEMA6A, SIAH1, SIRT1, SON, STAT5A, STAT5B, TESK2, TGFB2, TIAL1, TP53INP1, TXNL1, UBE4B, UNC5C | 1.20E-05 | Yes |
| hsa-miR-141 | 413 | 24 | ACVR1B, ALB, APBB2, BAG2, BCL10, DCC, EBAG9, FOXO3A, HMGB1, IL1A, NME1, PAK1, PDCD4, PERP, PHLPP, PPP2CA, PTK2B, SIAH1, SMNDC1, SNCA, SON, STAT5A, TGFB2, TP53INP1 | 3.32E-05 | Yes |
| hsa-miR-19b | 715 | 34 | ACTN1, BAG5, BCL3, CASP8, CSE1L, CUL5, DLX1, FASTK, GULP1, HIF1A, HIP1, IGF1, IGFBP3, MAEA, MAP3K1, NGFRAP1, PIK3CA, PRKAA1, PTK2B, RAF1, RHOB, RYBP, SGK, SGPP1, SLC25A6, SOCS3, SPHK2, SULF1, TESK2, TIA1, TIMP3, TNFRSF12A, TP53INP1, TP73L | 5.53E-05 | Yes |
| hsa-miR-518e | 312 | 19 | ACTN4, ALS2CR2, ANXA5, BNIP3, CD5, CDC2L2, DFFB, FGFR1, FXR1, IFNG, MAPK1, PIM1, PML, PPP1R13B, RRAGC, SON, TRAIP, TRIAP1, VCP | 0.000116642 | No |
| hsa-miR-101 | 627 | 30 | APP, BAG1, BUB1B, CD28, CDK5R1, CUL3, EBAG9, EDAR, EIF2AK3, FOXO1A, ING4, MAL, NCR1, NGFRAP1, PAX3, PLAGL1, PPP1R13B, PRKAA1, PRKCE, PURA, PURB, SEMA6A, SFRP1, SGK, SGPL1, SOCS2, SOX9, STAMBP, STK4, TP73L | 0.000134035 | No |
| hsa-miR-183 | 428 | 23 | AXUD1, BCL6, BNIP3L, BTG1, CD3E, CDK5R1, CTSB, DAP, EI24, FOXO1A, LCK, NOTCH1, PDCD11, PDCD4, PLAGL2, PPP2CA, PRKCA, PSEN2, PURA, RHOB, TP53BP2, UNC13B, VDAC1 | 1.54E-04 | Yes |
| hsa-miR-519c | 428 | 23 | ACVR1, ANXA4, AVEN, BAG3, BECN1, BIRC6, CAMK1D, DEDD, FASLG, FASTK, GLO1, IKIP, INHBA, NFKBIA, PTH, TAX1BP1, TEGT, TMEM23, TNFRSF10D, TNFSF18, TOPORS, TPT1, VCP | 0.000154374 | No |
| hsa-miR-181c | 824 | 36 | AHR, APIP, ASAH2, ATG5, BCL2, BCL2L11, BCL6, BCLAF1, CBX4, CCAR1, CEBPG, CECR2, CUL3, DNAJA3, GRIK2, HMGB1, HSPA5, IL1A, MAEA, MAP3K10, MGMT, NOTCH2, PAK7, PAWR, PDCD4, PHLDA1, PRKCE, PURB, RAD21, RNF34, SIRT1, SPP1, TIMP3, TNFRSF11B, TUBB, UNC5B | 1.82E-04 | Yes |
| hsa-miR-107 | 436 | 23 | AATF, ACVR1, APP, BCL2L2, BDNF, CFL1, CIAPIN1, ICEBERG, IHPK3, MAP3K7, NME5, NOTCH2, PDCD10, PIK3R1, PRKCE, PTH, PURB, RAD21, RASSF5, RYBP, SNRK, THY1, VCP | 2.02E-04 | Yes |
| hsa-miR-200b | 737 | 33 | ALS2CR2, APBB2, ARHGDIA, BAG2, BCAP29, BIRC4, CBX4, CROP, EP300, ERN1, FOXO3A, HGF, IL1A, MLH1, MYC, NPM1, NTF3, PAK7, PDCD10, PERP, PPM1F, PPP2CA, PRKCA, PROK2, RHOT1, SIAH1, SLK, STAT5A, SULF1, TIAL1, TNFRSF11B, TUBB, TUBB2C | 2.15E-04 | Yes |
| hsa-miR-29a | 530 | 26 | ANGPTL4, BAK1, BCL2L7P1, CD40, DAXX, DPF1, DUSP22, ELMO2, FEM1B, IFNG, MCL1, MSH6, MYBL2, POLB, PPP1R13B, PPP2CA, PRKRA, PTEN, SGK, TNFRSF1A, TNFRSF9, TRAF4, UACA, UBE4B, UNC13B, ZNF346 | 2.51E-04 | Yes |
| hsa-miR-142-3P | 364 | 20 | AKT1S1, BCL2L1, BIRC3, BUB1B, CRTAM, FOXO1A, HDAC1, HMGB1, IER3, IL6, PPT1, PRKDC, PRLR, PURB, RARG, RNF7, SGK, TESK2, TMEM23, TNFSF18 | 3.05E-04 | Yes |
| hsa-miR-520h | 238 | 15 | ATF5, BRE, CASP6, CDKN2A, CFLAR, DNASE2, FASTK, HBXIP, HIF1A, IFT57, LALBA, PDIA3, STK17A, TAX1BP1, VHL | 0.000412436 | No |