Table 3 Top 25 most significant p53-miRs that target known cell proliferation genes (n = 712). 22/25 of these 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 a cell proliferation gene purely by chance.

hsa-miR-23a

656

44

ALDH1A2, BCL11B, CBFA2T2, CBFA2T3, CDC6, CDK5R1, CFDP1, CSE1L, CTNNBIP1, CUL3, CXCL5, ELF4, ELF5, EPS15, GPC4, HDGFRP3, HOXA3, IHH, IL11, IL6R, IRF2, KITLG, LRP5, MAPRE1, MDK, MET, MLLT7, NAP1L1, NOTCH2, NPM1, NR6A1, ODZ1, OPRM1, PRKRIR, PTK2B, RAP1B, SMAD3, SPOCK1, STAT5B, TGFA, TOB2, TRIB1, TUSC2, ZAK

8.42E-10

Yes

hsa-miR-92

614

41

ADM, AGGF1, APRIN, BMPR2, BRCA1, BTG2, CBFA2T3, CDC27, CDK6, CDKN1C, CTNNBIP1, CUL3, CXCL5, DERL2, DLG5, EDG1, EPS8, GDF11, HHIP, IGF1R, INSIG1, IRS2, KLF4, LBX1, MITF, NCK2, NF1, NOTCH1, NOX4, PAFAH1B1, PAX3, PCAF, RAP1B, RBM9, SPHK2, TBX3, TCFL5, TOB1, TOB2, UTP20, ZAK

3.64E-09

Yes

hsa-miR-32

630

39

ADM, AGGF1, APRIN, BMPR2, BTG2, BTLA, CBFA2T3, CDK6, CDKN1C, CHRM5, CTNNBIP1, CUL3, CXCL5, EDD1, EDG1, EPS8, EVI5, GDF11, HHIP, INSIG1, IRS2, KLF4, LBX1, MITF, NCK2, NOTCH1, NOX4, PAFAH1B1, PAX3, PCAF, RAP1B, RBM9, SPHK2, TBX3, TCFL5, TOB1, TOB2, TTK, ZAK

6.67E-08

Yes

hsa-miR-200b

737

42

APRIN, BAP1, BCL11B, BHLHB3, CD274, CDC25B, CNOT8, CNTFR, CTBP2, EDNRA, EPS8, ETS1, EVI5, GAB1, GLI3, HDAC4, HELLS, HGF, IL1A, KHDRBS1, KLF10, KLF4, LAMC1, LRP1, LRPAP1, MAFG, MAPRE1, MXD4, MYC, NCK2, NDN, NPM1, PCAF, POU3F2, PROK2, PTHLH, RAP1B, SESN1, SHC1, STAT5A, SUZ12, TOB1

2.02E-07

Yes

hsa-miR-200c

751

42

APRIN, BAP1, BCL11B, BHLHB3, BIN1, CD274, CNOT8, CNTFR, CTBP2, EDNRA, EPS8, ETS1, EVI5, GAB1, GLI3, GNAT1, HDAC4, HELLS, HGF, KHDRBS1, KLF10, KLF4, LAMC1, LRP1, LRPAP1, MAFG, MAPRE1, MXD4, MYC, NCK2, NDN, NPM1, PCAF, POU3F2, PROK2, PTHLH, RAP1B, SCG2, SESN1, SHC1, STAT5A, TOB1

3.33E-07

Yes

hsa-miR-195

766

42

ALOX12, AXIN2, BAI1, BDNF, BHLHB3, BIN1, BTG2, CBFA2T3, CD164, CD28, CD40, CDC25A, CDC27, CDK5R1, CHEK1, CUL2, DNAJA2, EFNB1, FGF2, FGF7, FOSL1, HDGF, HOXA3, LAMC1, MAPRE1, MNT, MTCP1, NF2, PAFAH1B1, PDAP1, PIM1, POU3F2, PPAP2A, PPM1D, PRDM4, PRKCD, PTHLH, PURB, RAF1, RARRES1, SESN1, SPEG

5.60E-07

Yes

hsa-miR-10a

230

20

BCAR1, BCL6, BDNF, CDK4, CTNNBIP1, FLT1, HDAC4, HOXA3, ID4, IFNAR2, JARID2, KLF11, KLF4, MAPRE1, PAFAH1B1, PURB, SERTAD1, SHC1, TRAIP, ZMYND11

7.09E-07

Yes

hsa-miR-10b

237

20

BCAR1, BCL6, BDNF, CDK4, CNOT8, CTNNBIP1, FLT1, HDAC4, HOXA3, ID4, IFNAR2, JARID2, KLF11, KLF4, MAPRE1, PAFAH1B1, PURB, SHC1, TRAIP, ZMYND11

1.14E-06

Yes

hsa-miR-24

445

29

ADM, CD164, CD28, CDK5, CDKN1B, CDV3, CNTFR, CSF2, CSK, DCTN2, EDG1, FLT1, GPC4, ING5, INSIG1, MAFG, MNT, MXI1, NUDC, PDGFRA, PIM1, PIM2, PURB, RAP1B, SERTAD1, SESN1, SPHK1, TOB2, ZNF259

1.16E-06

Yes

hsa-miR-203

505

31

ALDH1A2, BCL11B, CASP3, CNTFR, DLG5, EDD1, EDN1, EDNRA, FGG, GLI3, HBEGF, ID4, INSIG1, IRS2, KHDRBS1, MAPRE1, NUMBL, PDAP1, PDGFRA, PPM1D, PRKRIR, PURB, RERG, SMAD1, SMAD3, TBX3, TGFB2, TNFRSF8, TUSC2, USP8, ZMYND11

1.77E-06

Yes

hsa-miR-124a

1333

60

ANXA7, AR, BCL11B, BCL6, BTG2, CAPN1, CAV1, CD164, CD276, CDK6, CDKN1A, CUL5, DLG5, DLG7, EFNB1, EMP2, EPS8, ERF, ETS1, EVI1, EVI5, FGFR1OP, GAS1, GNAI2, GPC4, HDAC4, IL9R, ING1, JAG1, JAG2, KLF4, LAMC1, MAP3K11, MAPRE1, MDK, MITF, MXD4, NCK2, NRP1, OVOL2, PAFAH1B1, PBEF1, PDZK1, PGF, PIM1, PRKD1, PTHLH, PURB, QSCN6, RAF1, RAP1B, RARRES1, RHOG, SHC1, SOX9, SPHK1, SPOCK1, TAL1, TOB2, UHRF1

1.82E-06

Yes

hsa-miR-106a

751

40

BCL11B, BCL6, BHLHB3, BMPR2, BTG1, BTG2, BTG3, CDKN1A, COL4A3, CSF1, DERL2, E2F1, EBI3, EDD1, EDG1, EFNB1, EREG, FLT1, FZD3, GAB1, HDAC4, KLF11, LIF, MAP3K11, MAPRE1, PAFAH1B1, PCAF, PDGFRA, PPARD, PTEN, PTHLH, PURB, RB1, RBBP7, TAL1, TBX3, TGFB1, TOPORS, TSG101, TUSC2,

2.13E-06

Yes

hsa-miR-142-3P

364

25

BTG4, BUB1B, CDC14A, CDC25C, CRTAM, EDG3, EHF, ERG, FGFR1OP, FNTB, FOXO1A, FRK, GRN, IL6, IL6ST, KHDRBS1, KLF10, MAP3K11, MLLT7, NUMBL, PCAF, PURB, SKP2, TNFRSF13C, UTP20,

2.50E-06

Yes

hsa-miR-33

312

22

APRIN, BCL11B, BMPR2, CD40, CDK6, CKS2, DOCK2, FGA, FGFBP1, HIPK2, HOXC10, IRS2, LGI1, LMO1, NPM1, NPY, PDGFRA, PIM1, PURB, RB1, TSG101, UBE2V2,

6.53E-06

No

hsa-miR-372

378

24

BCL6, BTG1, CDCA7, CDK2, CXCR4, DERL2, DNAJA2, E2F1, ERBB4, FGF9, FRK, IRF2, MAP3K11, MNT, PCAF, PRDM4, PURB, RBBP7, TAL1, TOB2, TUSC2, UCHL1, ZFP36L2, ZMYND11,

1.47E-05

Yes

hsa-miR-101

627

33

BUB1B, CALCRL, CBFA2T2, CD28, CDC14A, CDC27, CDH5, CDK5R1, CDK6, CSRP2, CUL3, DLG5, ELN, EMP1, FGA, FOXO1A, GLI3, GNB1, ING4, PAX3, PBEF1, PPBP, PPP1R8, PURA, PURB, RAP1B, RBBP7, SOX9, STAMBP, TAL1, TCF19, TGFBR1, TRIB1,

2.09E-05

No

hsa-miR-19b

715

36

ANXA7, BMPR2, CD164, CDC2L5, CHERP, CLK1, CNTFR, CSE1L, CUL5, DLG5, DNAJA2, EDG1, EPS15, ERBB4, EREG, FOSL1, GCG, GRN, HDAC4, HHIP, HPRT1, ID4, IGF1, IMPDH1, KLF10, LIF, PCAF, POU3F2, PTK2B, RAF1, RAP1B, SMARCA2, SPHK2, ST8SIA1, SUZ12, ZMYND11

2.29E-05

Yes

hsa-miR-196a

243

18

ACSL6, ANXA1, ATP6AP1, CASP3, CBFA2T3, CCL23, CDKN1B, ELF4, ERG, IGFBP7, ING5, MYC, NFKBIA, PA2G4, PDGFRA, SSR1, UHRF2, ZMYND11

2.30E-05

Yes

hsa-miR-26b

633

33

ADM, BCL6, BTG1, CDC27, CDC2L5, CDK6, CKS2, DLG5, DNAJA2, ENPEP, EPS15, ERBB4, HGF, HIPK2, HOXD13, IGF1, IL6, JAG1, KLF10, KLF4, LIF, MITF, MXI1, PAWR, PBEF1, PDGFRA, PIM1, PRKCD, PRKCQ, PTEN, SMAD1, SMAD4, TOB1,

2.52E-05

Yes

hsa-miR-196b

245

18

ACSL6, ANXA1, ATP6AP1, CBFA2T3, CCL23, CDKN1B, ELF4, ERG, FOXN1, IGFBP7, ING5, MYC, NF2, NFKBIA, PA2G4, PDGFRA, SSR1, ZMYND11

2.57E-05

Yes

hsa-miR-9

737

36

ARHGEF2, BCL6, BIN1, BTG2, CBFA2T2, CNTFR, COL18A1, CUL4A, CXCR4, EDD1, ERG, ETS1, FGF5, FOXO1A, HDAC4, HES1, ID4, INSIG1, KITLG, LEPRE1, LIFR, NAP1L1, NOTCH2, NOX4, NRP1, ODZ1, PDGFC, PMP22, POU3F2, PPARD, RAP1B, RBM9, SHC1, TBC1D8, TGFBI, UHRF1

4.29E-05

Yes

hsa-miR-29b

541

29

BAX, BCL11B, CAV2, CD40, CDC7, CREG1, DUSP22, EPS15, FRAT2, FSCN1, GAB1, HDAC4, INSIG1, JARID2, LAMC1, MAFG, NASP, PDGFB, PDGFC, PINX1, PMP22, PPM1D, PRKRA, PTEN, SETDB1, SMARCA2, SPEG, TNFRSF9, UHRF2

4.71E-05

Yes

hsa-miR-200a

634

32

APRIN, ATP8A2, BAP1, BIN1, CD274, CDC14A, CDC25A, CDC25B, CDC2L5, CDK6, CSF3, CTBP2, CTNNB1, CUL3, FLT1, GAB1, HDAC4, HGF, IL1A, IRS2, JAG1, NME1, NRP1, PAX3, PBEF1, POU3F2, PRKD1, SCG2, STAT4, STAT5A, STAT5B, TGFB2

6.15E-05

Yes

hsa-miR-34a

666

33

AREG, ARX, BCL11B, BCL6, CBFA2T3, CD28, CD3E, CDC25A, CSF1R, EFNB1, ENPP7, FOSL1, GFER, GNAI2, IL6R, JAG1, KITLG, KLF4, LGI1, MET, MOV10L1, NOTCH1, NOTCH2, NUMBL, PDGFRA, PGF, PRKD1, PURB, SPEG, TGFBI, TOB2, TOPORS, UHRF2

6.76E-05

Yes

hsa-miR-181c

824

38

ABI1, ADAMTS1, ADM, ARHGEF2, BCL6, BMPR2, CALCRL, CBFA2T2, CBFA2T3, CKS1B, CUL3, EDG1, EPS15, ERF, ERG, ETS1, FLT1, IL1A, IRS2, LIF, LMO1, NOTCH2, NR6A1, PAFAH1B1, PAWR, PCAF, PDAP1, PDGFRA, PRDM4, PRKCD, PURB, RAP1B, RBBP7, TGFBI, TGFBR1, TGFBR2, USP8, VIP

8.89E-05

Yes