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Table 1 Candidate epigenetically regulated miRNAs

From: Discovery pipeline for epigenetically deregulated miRNAs in cancer: integration of primary miRNA transcription

   

Tiling array

Mature miRNA fold change

Reference

Name

Chr

Str

RNA

DNA meth.

H3K9Ac ChIP

L v P

p

L v 5Aza

p

P v 5Aza

p

Epi./Cancer

MIRLET7c

21

+

34.26

-0.14

3.07

54.948

*

0.986

 

1.505

 

-/[33]

MIR141

12

+

7.2

-0.46

4.31

2.928

*

2.235

*

1.110

 

[34]

MIR15b

3

+

11.41

-4.65

-4.02

2.071

*

0.616

 

0.986

 

-/[35]

MIR16-2

3

+

10.52

-3.6

-2.54

2.713

*

1.424

*

0.742

 

-/[36]

MIR423

17

+

8.91

-0.81

2.39

4.857

*

0.774

 

2.445

*

-/[37]

MIR491

9

+

9.03

-2.08

0.83

5.352

*

1.117

 

1.301

 

-/[38]

MIR615

12

+

4.03

-3.45

5.5

1.9E+03

*

1.231

 

32.672

*

-/-

MIR618

12

-

4.18

2.44

5.73

4.1E+02

*

1.945

*

1.385

 

-/[39]

MIR99a

21

+

26.52

-2.9

3.72

2.329

*

1.035

 

0.908

 

-/[40]

MIR130a

11

+

-7.19

-1.92

-3.85

0.004

*

2.532

*

1.102

 

-/[41]

MIR135b

1

-

-3.93

2.8

-7.82

0.003

*

0.337

 

1.828

 

-/[42]

MIR137

1

-

-3.81

1.19

-3.41

0.016

*

2.173

 

5.897

 

[43]

MIR196b

7

-

-11.26

2.07

-5.05

0.356

*

1.591

*

0.829

 

[21]/[44]

MIR205

1

+

-26.47

2.37

-12.09

1.2E-05

*

1.1E+02

*

1.659

 

[13]/[15]

MIR21

17

+

-21.68

13.78

-12.98

0.637

*

2.362

*

3.272

*

[19]/[18]

MIR24-1

9

+

-5.64

3.73

-0.27

0.057

*

1.569

*

1.231

 

-/[45]

MIR31

9

-

-2.79

-9.75

-3.04

1.7E-06

*

1.357

 

0.959

 

-/[46]

MIR376a-2

14

+

-5.98

2.96

2.59

0.020

*

4.857

 

2.888

 

-/[47]

MIR424

X

-

-3.94

1.95

-2.56

0.259

*

0.883

 

4.287

*

-/[39]

MIR654

14

+

-5.42

2.57

4.14

0.136

*

1.357

 

0.295

*

-/-

  1. Table listing significantly changed miRNA genes identified in this study. Values represent relative change in LNCaP compared to PrEC. Tiling array t-statistics represent the significance of the average difference for each miRNA, with increasing values indicating higher significance level. Mature miRNA levels are given as -fold change with the associated p-value. The four miRNAs found to be significant in all our criteria are highlighted in bold type. Chr: Chromosome, Str: Strand, meth: DNA-methylation, L: LNCaP, P: PrEC, 5Aza: treatment with 5-Aza-CdR, p *: p-value < 0.05, Epi./Cancer: publication indicating epigenetic/cancer regulation.
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BMC Genomics

ISSN: 1471-2164

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