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Table 1 Bio-informatic analysis of transcripts encoding mRNP components

From: mRNP granule proteins Fmrp and Dcp1a differentially regulate mRNP complexes to contribute to control of muscle stem cell quiescence and activation

Data from Yue et al (2020)

Accession

GSE113631

mRNP component genes Table 1

 

FPKM values

fSC vs ASC

Functional Class

Gene Symbol

ASC_rep1

ASC_rep2

fSC_rep1

fSC_rep2

Fold change (Log2)

adjusted p-value (BH correction)

Fold change

ARE binding

Tnpo1

57.211

65.710

17.063

15.135

-1.93

0.0353

0.26

ARE binding

Zfp36

22.033

19.558

15.694

13.194

-0.53

0.1265

0.69

ARE binding

Tia1

7.034

6.693

16.816

16.464

1.28

0.0117

2.42

Deadenylation

Cnot1

105.514

110.661

20.399

21.317

-2.37

0.0135

0.19

Deadenylation

Cnot2

41.603

42.019

26.262

15.837

-0.99

0.1112

0.50

Deadenylation

Cnot6l

32.610

34.390

24.860

25.916

-0.4

0.0481

0.76

Deadenylation

Cnot8

25.708

26.029

30.524

23.093

0.05

0.8439

1.04

Deadenylation

Pan2

12.528

10.940

15.276

14.178

0.33

0.1543

1.26

Deadenylation

Tob2

11.102

12.033

16.704

14.161

0.42

0.1717

1.34

Deadenylation

Cnot4

10.540

8.787

11.628

17.230

0.58

0.3379

1.49

Deadenylation

Pan3

3.337

3.622

5.453

5.373

0.64

0.0281

1.56

Deadenylation

Cnot3

0.864

0.889

3.501

3.168

1.93

0.0252

3.81

Decapping

Lsm3

249.390

284.670

85.416

78.982

-1.7

0.0357

0.31

Decapping

Dcp1a

16.651

17.486

5.447

5.466

-1.65

0.0151

0.32

Decapping

Edc3

12.841

12.809

5.918

4.803

-1.26

0.0274

0.42

Decapping

Patl1

10.775

9.751

5.821

4.656

-0.97

0.0601

0.51

Decapping

Edc4

24.210

23.716

12.896

12.523

-0.91

0.0130

0.53

Decapping

Dcp2

9.174

10.101

7.586

8.180

-0.29

0.1489

0.82

Decapping

Lsm2

32.104

34.063

28.098

31.387

-0.15

0.3121

0.90

Decapping

Lsm6

209.767

214.354

204.279

179.065

-0.15

0.3451

0.90

Decapping

Lsm7

58.943

65.467

66.429

58.668

0.01

0.9582

1.01

Decapping

Lsm5

87.274

87.571

126.064

111.808

0.44

0.0971

1.36

Decapping

Lsm1

4.656

4.518

7.664

5.746

0.55

0.2374

1.46

Decapping

Dcp1b

0.440

0.394

2.564

2.611

2.63

0.0081

6.20

Decapping

Lsm4

5.825

5.767

42.218

38.352

2.80

0.0207

6.95

Many RNP functions

Eif4e

230.579

234.878

57.512

38.165

-2.28

0.0202

0.21

Many RNP functions

Ddx1

56.948

56.634

16.101

9.526

-2.15

0.0276

0.23

Many RNP functions

Eif2s2

183.202

191.179

68.677

56.697

-1.58

0.0214

0.33

Many RNP functions

Eif2b1

76.122

77.151

33.579

23.721

-1.42

0.0379

0.37

Many RNP functions

Gemin5

70.000

66.713

28.690

30.406

-1.21

0.0184

0.43

Many RNP functions

Trim59

4.600

4.463

2.249

1.956

-1.11

0.0247

0.46

Many RNP functions

Lima1

15.817

12.996

8.282

10.047

-0.65

0.1513

0.64

Many RNP functions

Dhx40

5.881

6.893

5.668

4.463

-0.33

0.3256

0.79

Many RNP functions

Pdlim7

15.903

17.440

19.606

18.779

0.20

0.1690

1.15

Many RNP functions

Fmr1

42.281

42.132

58.735

49.227

0.35

0.2056

1.28

Many RNP functions

Xrn1

11.279

11.434

14.211

17.589

0.49

0.1853

1.40

Many RNP functions

Eif2b4

22.085

21.683

33.687

31.827

0.58

0.0322

1.50

Many RNP functions

Pcbp2

77.519

73.659

138.630

159.083

0.98

0.0542

1.97

Many RNP functions

Trim28

19.447

19.682

33.020

45.418

1.00

0.1500

2.00

Many RNP functions

Lpp

30.789

32.101

113.147

97.692

1.75

0.0385

3.35

Many RNP functions

Ddx5

65.868

58.928

263.633

201.650

1.90

0.0746

3.73

Many RNP functions

Peg3

105.426

104.905

445.266

466.449

2.12

0.0135

4.33

Many RNP functions

Ybx1

64.225

64.993

464.325

296.992

2.56

0.1191

5.90

Many RNP functions

Ddx17

9.400

8.959

111.803

114.915

3.63

0.0081

12.35

Many RNP functions

Trim21

0.015

0.017

0.417

0.613

5

0.0809

32.00

miRNA-mediated gene silencing

Limd1

46.125

42.266

43.565

43.929

-0.01

0.8565

0.99

miRNA-mediated gene silencing

Tnrc6a

8.243

8.496

10.950

13.634

0.55

0.1674

1.47

miRNA-mediated gene silencing

Htt

2.976

2.676

6.126

6.307

1.14

0.0195

2.20

miRNA-mediated gene silencing

Tnrc6b

4.196

4.958

14.202

15.669

1.71

0.0293

3.27

miRNA-mediated gene silencing

Ipo8

4.524

4.272

16.861

15.367

1.87

0.0242

3.66

miRNA-mediated gene silencing

Tnrc6c

3.082

3.039

16.137

17.995

2.48

0.0247

5.58

NMD pathway

Smg7

58.640

66.881

11.867

12.560

-2.36

0.0299

0.19

NMD pathway

Upf2

13.025

15.822

16.257

16.691

0.19

0.3801

1.14

NMD pathway

Upf1

14.745

16.093

17.029

20.119

0.27

0.2885

1.21

NMD pathway

Pnrc2

44.583

42.606

61.898

49.546

0.35

0.2770

1.28

NMD pathway

Upf3b

24.102

22.611

42.912

44.988

0.91

0.0230

1.88

NMD pathway

Smg5

2.169

2.287

7.059

6.539

1.61

0.0217

3.05

NMD pathway

Smg6

6.228

6.373

26.228

27.657

2.10

0.0148

4.28

NMD pathway

Upf3a

5.788

5.261

34.781

29.334

2.54

0.0379

5.82

NMD pathway

Pnrc1

3.468

2.819

103.360

88.526

4.93

0.0293

30.52

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