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Table 4 List of a selection (101) of the Double Indirect miRNA STPPs obtained with CyTRANSFINDER using the host gene of miR-214, DNM3, as the source gene, a signature of 73 genes published in [33] as destination genes, and involving TFAP2C and CREB1 transcription factors

From: CyTRANSFINDER: a Cytoscape 3.3 plugin for three-component (TF, gene, miRNA) signal transduction pathway construction

SmiRNA

References

TF

TF target (Gene)

ImiRNA

References

DG

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

 

LRP6

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

[56, 57]

MET

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

 

NCAM1

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

[57–59]

ARHGAP12

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

 

HBEGF

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

 

EGFR

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

[56]

MITF

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-27B-3p

[60]

CDH11

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-23B

 

MITF

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-23B

[61, 62]

PAK2

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-23B

[56, 62, 63]

PTEN

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-23B

 

BMPR1B

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-23B

 

JAM3

hsa-mir-214

[33]

TFAP2C

C9ORF3

HSA-MIR-23B

[56, 62]

MET

hsa-mir-214

[33]

TFAP2C

BCAR3

HSA-MIR-760

 

MMP2

hsa-mir-214

[33]

TFAP2C

BCAR3

HSA-MIR-760

 

ITGA3

hsa-mir-214

[33]

TFAP2C

BCAR3

HSA-MIR-760

 

ENG

hsa-mir-214

[33]

TFAP2C

CALCR

HSA-MIR-489

 

HBEGF

hsa-mir-214

[33]

TFAP2C

CALCR

HSA-MIR-489

 

TIMP2

hsa-mir-214

[33]

TFAP2C

PTPRN2

HSA-MIR-595

 

TGFBI

hsa-mir-214

[33]

TFAP2C

PTPRN2

HSA-MIR-595

 

CDH11

hsa-mir-214

[33]

TFAP2C

KIAA1217

HSA-MIR-603

 

TIMP3

hsa-mir-214

[33]

TFAP2C

KIAA1217

HSA-MIR-603

 

BMPR1B

hsa-mir-214

[33]

TFAP2C

KIAA1217

HSA-MIR-603

 

ITGB3

hsa-mir-214

[33]

TFAP2C

PRKCA

HSA-MIR-634

 

BCAM

hsa-mir-214

[33]

TFAP2C

PRKCA

HSA-MIR-634

 

JAG1

hsa-mir-214

[33]

TFAP2C

PDE4D

HSA-MIR-582

 

LRP6

hsa-mir-214

[33]

TFAP2C

PDE4D

HSA-MIR-582

 

MITF

hsa-mir-214

[33]

TFAP2C

PDE4D

HSA-MIR-582

 

BMPR1B

hsa-mir-214

[33]

TFAP2C

PDE4D

HSA-MIR-582

 

JAM3

hsa-mir-214

[33]

TFAP2C

PDE4D

HSA-MIR-582

 

ADAM9

hsa-mir-214

[33]

TFAP2C

LPP

HSA-MIR-28

 

BCAM

hsa-mir-214

[33]

TFAP2C

GIPR

HSA-MIR-642A

 

CDH2

hsa-mir-214

[33]

TFAP2C

GIPR

HSA-MIR-642B

 

PTEN

hsa-mir-214

[33]

TFAP2C

GIPR

HSA-MIR-642B

 

PAK2

hsa-mir-214

[33]

TFAP2C

TENM4

HSA-MIR-708

 

BCAM

hsa-mir-214

[33]

TFAP2C

AKT2

HSA-MIR-641

 

TIMP3

hsa-mir-214

[33]

TFAP2C

AKT2

HSA-MIR-641

 

TFAP2A

hsa-mir-214

[33]

TFAP2C

AKT2

HSA-MIR-641

 

LRP6

hsa-mir-214

[33]

TFAP2C

AKT2

HSA-MIR-641

 

SEMA3A

hsa-mir-214

[33]

TFAP2C

DAPK3

HSA-MIR-637

 

FLT1

hsa-mir-214

[33]

TFAP2C

DAPK3

HSA-MIR-637

 

CLU

hsa-mir-214

[33]

TFAP2C

ZRANB2

HSA-MIR-186

 

ITGA6

hsa-mir-214

 

CREB1

ZRANB2

HSA-MIR-186-5p

[59]

TFAP2A

hsa-mir-214

 

CREB1

ZRANB2

HSA-MIR-186

 

JAG1

hsa-mir-214

 

CREB1

ZRANB2

HSA-MIR-186

 

MITF

hsa-mir-214

 

CREB1

SUPT3H

HSA-MIR-586

 

FLT1

hsa-mir-214

 

CREB1

SUPT3H

HSA-MIR-586

 

EREG

hsa-mir-214

 

CREB1

SUPT3H

HSA-MIR-586

 

EGFR

hsa-mir-214

 

CREB1

SUPT3H

HSA-MIR-586

 

SEMA3A

hsa-mir-214

 

CREB1

KIF18A

HSA-MIR-610

 

TIMP3

hsa-mir-214

 

CREB1

KIF18A

HSA-MIR-610

 

LRP6

hsa-mir-214

 

CREB1

UGT8

HSA-MIR-577

 

CD44

hsa-mir-214

 

CREB1

UGT8

HSA-MIR-577

 

TFAP2A

hsa-mir-214

 

CREB1

UGT8

HSA-MIR-577

 

PTEN

hsa-mir-214

 

CREB1

TUFT1

HSA-MIR-554

 

PODXL

hsa-mir-214

 

CREB1

SREBF2

HSA-MIR-33A

 

CDH11

hsa-mir-214

 

CREB1

SREBF2

HSA-MIR-33A

 

MITF

hsa-mir-214

 

CREB1

SREBF2

HSA-MIR-33A

 

CX3CL1

hsa-mir-214

 

CREB1

PANK1

HSA-MIR-107

 

CX3CL1

hsa-mir-214

 

CREB1

PANK1

HSA-MIR-107

 

LRP6

hsa-mir-214

 

CREB1

NRD1

HSA-MIR-761

 

TFAP2C

hsa-mir-214

 

CREB1

NRD1

HSA-MIR-761

 

PVRL2

hsa-mir-214

 

CREB1

NRD1

HSA-MIR-761

 

MITF

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

LRP6

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

CEACAM1

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

ITGA6

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

PTEN

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

ADAM9

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

SEMA3A

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

ITGB3

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E

 

NCAM1

hsa-mir-214

 

CREB1

NFYC

HSA-MIR-30E-3p

[60]

TIMP3

hsa-mir-214

 

CREB1

MRE11A

HSA-MIR-548L

 

PVRL2

hsa-mir-214

 

CREB1

MRE11A

HSA-MIR-548L

 

PAK2

hsa-mir-214

 

CREB1

SND1

HSA-MIR-593

 

ERBB2

hsa-mir-214

 

CREB1

TMEM245

HSA-MIR-32-5p

[56, 58, 59]

ITGA6

hsa-mir-214

 

CREB1

TMEM245

HSA-MIR-32-5p

 

PTEN

hsa-mir-214

 

CREB1

TMEM245

HSA-MIR-32-5p

[64]

SEMA3A

hsa-mir-214

 

CREB1

TMEM245

HSA-MIR-32-5p

[65]

ITGAV

hsa-mir-214

 

CREB1

TMEM245

HSA-MIR-32-5p

 

MITF

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

[66]

ERBB3

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

[34]

ALCAM

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

 

MET

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

 

NCAM1

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

 

PODXL

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

[63]

PTEN

hsa-mir-214

 

CREB1

COPZ1

HSA-MIR-148B

 

MITF

hsa-mir-214

 

CREB1

CPE

HSA-MIR-578

 

PVR

hsa-mir-214

 

CREB1

CPE

HSA-MIR-578

 

PTEN

hsa-mir-214

 

CREB1

CHM

HSA-MIR-361

 

PODXL

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

[64]

SEMA3A

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

[63, 67]

APP

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

[58]

PAK2

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

 

PODXL

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

 

PVRL2

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

[65]

TFAP2A

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

[63]

ARHGAP12

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

 

KDR

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

 

CX3CL1

hsa-mir-214

 

CREB1

SMC4

HSA-MIR-15B-5p

 

LRP6

  1. Results are computed using miRNA targets confirmed in at least two databases. smiRNA name: source intragenic microRNA; TF: Transcription Factor; TF target (Gene): Transcription Factor target gene, which is also the host gene for a miRNA; ImiRNA: miRNA located inside the TF target gene; DG: Destination Gene, list of targets of the intragenic miRNAs predicted by at least two algorithms; Reference: data available from literature