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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.

From: Dissecting microregulation of a master regulatory network

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