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Table 4 miRNA enrichment analysis of mouse cleft lip genes (FDR < 0.2)

From: MicroRNA-124-3p suppresses mouse lip mesenchymal cell proliferation through the regulation of genes associated with cleft lip in the mouse

miRNA

# genes

Gene symbols

p value

FDR (BH*)

mmu-miR-200a-3p

10

Ctnnb1, Myh10, Zeb1, Esrp1, Pbx1, Ptch1, Satb2, Sox11, Tfap2a, Tgfbr1

3.00E-05

0.053

mmu-miR-141-3p

9

Myh10, Zeb1, Esrp1, Pbx1, Ptch1, Satb2, Sox11, Tfap2a, Tgfbr1

1.74E-04

0.062

mmu-miR-196a-5p

6

Ednrb, Pbx1, Pbx3, Rpgrip1l, Rspo2, Sox11

1.41E-04

0.062

mmu-miR-196b-5p

6

Ednrb, Pbx1, Pbx3, Rpgrip1l, Rspo2, Sox11

1.41E-04

0.062

mmu-miR-710

6

Cdc42, Ctnnb1, Pbx3, Rpgrip1l, Satb2, Sp8

1.29E-04

0.062

mmu-miR-101a-3p

10

Cdc42, Msx1, Pax9, Pbx3, Ptch1, Rspo2, Sox11, Tbx1, Tgfbr1, Zeb1

4.77E-04

0.072

mmu-miR-101b-3p

9

Cdc42, Msx1, Pbx3, Ptch1, Rspo2, Sox11, Tbx1, Tgfbr1, Zeb1

5.31E-04

0.072

mmu-miR-144-3p

9

Msx1, Pbx3, Ptch1, Rpgrip1l, Rspo2, Sox11, Tbx1, Tgfbr1, Zeb1

2.72E-04

0.072

mmu-let-7a-1-3p

5

Bmpr1a, Cdc42, Ctnnb1, Lrp6, Ptch1

5.25E-04

0.072

mmu-let-7b-3p

5

Bmpr1a, Cdc42, Ctnnb1, Lrp6, Ptch1

5.25E-04

0.072

mmu-let-7c-2-3p

5

Bmpr1a, Cdc42, Ctnnb1, Lrp6, Ptch1

5.25E-04

0.072

mmu-let-7f-1-3p

5

Bmpr1a, Cdc42, Ctnnb1, Lrp6, Ptch1

5.25E-04

0.072

mmu-miR-98-3p

5

Bmpr1a, Cdc42, Ctnnb1, Lrp6, Ptch1

5.25E-04

0.072

mmu-miR-181a-5p

11

Ednrb, Ermp1, Ptch1, Ptpn11, Myh10, Pax9, Pbx1, Pbx3, Rspo2, Sox11, Tgfbr1

7.27E-04

0.081

mmu-miR-466 l

13

Bmp4, Dzip1l, Lrp6, Pax9, Pbx1, Pbx3, Ptpn11, Rspo2, Satb2, Sox11, Tbx1, Wnt9b, Zeb1

1.26E-03

0.118

mmu-miR-686

5

Pbx1, Rpgrip1l, Tgfbr1, Zeb1, Ptch1

1.40E-03

0.124

mmu-miR-320-3p

7

Bmpr1a, Ctnnb1, Lrp6, Pbx1, Pbx3, Satb2, Tgfbr1

1.49E-03

0.126

mmu-miR-205-5p

6

Ext1, Lrp6, Pax9, Pbx1, Satb2, Zeb1

1.62E-03

0.131

mmu-miR-491

14

Cdc42, Ermp1, Esrp1, Fgf8, Kif7, Mks1, Myh10, Pax9, Pbx2, Tbx10, Wdr19, Wnt9b, Zeb1, Sox11

1.76E-03

0.136

mmu-miR-142a-3p

7

Bmpr1a, Ctnnb1, Myh10, Sox11, Sp8, Tgfbr1, Zeb1

2.45E-03

0.139

mmu-miR-302c

5

Ednrb, Pbx3, Tgfbr1, Wnt9b, Zeb1

2.39E-03

0.139

mmu-miR-669b

5

Cdc42, Ext1, Pbx2, Rpgrip1l, Sox11

2.39E-03

0.139

mmu-miR-669f

9

Cdc42, Gldc, Msx1, Pax9, Pbx1, Pbx3, Rspo2, Satb2, Tgfbr1

2.05E-03

0.139

mmu-miR-124

16

Bmpr1a, Ctnnb1, Ednrb, Esrp1, Folr1, Gldc, Hhat, Ift88, Lrp6, Myh10, Pax9, Pbx1, Ptpn11, Rspo2, Zeb1, Tgfbr1

2.91E-03

0.149

mmu-miR-124-3p

13

Cdc42, Pbx3, Sp8, Bmpr1a, Ednrb, Ermp1, Esrp1, Ift88, Lrp6, Myh10, Ptpn11, Tgfbr1, Zeb1

2.95E-03

0.149

mmu-miR-374c-5p

7

Esrp1, Myh10, Pbx3, Ptch1, Ptpn11, Sp8, Zeb1

3.34E-03

0.165

mmu-miR-425-5p

6

Pbx1, Ptch1, Ptpn11, Rpgrip1l, Tgfbr1, Satb2

3.79E-03

0.174

mmu-miR-673-5p

5

Sox11, Ctnnb1, Pax9, Rpgrip1l, Sp8

3.81E-03

0.174

mmu-miR-142-5p

6

Cdc42, Ctnnb1, Pax9, Pbx3, Rpgrip1l, Trp63

3.64E-03

0.174

mmu-miR-543-3p

6

Ermp1, Myh10, Pbx1, Pbx3, Ptch1, Rspo2

4.58E-03

0.194

mmu-miR-340-5p

24

Bbs7, Bmp4, Bmpr1a, Cdc42, Ermp1, Esrp1, Gldc, Lrp6, Mks1, Msx1, Pbx1, Pbx2, Pbx3, Rpgrip1l, Rspo2, Sox11, Tgfbr1, Tmem107, Trp53, Trp63, Wdr19, Zeb1, Myh10, Ptch1

4.98E-03

0.198

mmu-miR-23a-3p

8

Ednrb, Esrp1, Pax9, Pbx1, Rpgrip1l, Satb2, Sox11, Zeb1

5.13E-03

0.198

mmu-miR-23b-3p

8

Ednrb, Esrp1, Pax9, Pbx1, Rpgrip1l, Satb2, Sox11, Zeb1

5.07E-03

0.198

  1. * FDR (false discovery rate): the p-values were corrected using the Benjamini–Hochberg multiple test correction [69]
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