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Table 3 Number of junctions not from ENSEMBL known genes

From: PASTA: splice junction identification from RNA-Sequencing data

Run

Group

 

PASTA

TopHat

Common

Common /PASTA

Common /TopHat

1

Control

Lane 1

36702

15094

3267

0.089

0.216

  

Lane 3

29331

14416

3098

0.106

0.215

  

Total

55647

26433

5368

0.096

0.203

 

Mutant

Lane 1

40393

15293

2589

0.064

0.169

  

Lane 2

35243

14997

2990

0.085

0.199

  

Lane 3

38547

16255

3110

0.081

0.191

  

Lane 4

60059

17930

2234

0.037

0.125

  

Total

124104

53439

7947

0.064

0.149

2

Control

Lane 1

35150

25080

10251

0.292

0.409

  

Lane 2

22487

12716

4785

0.213

0.376

  

Lane 3

24928

13716

5190

0.208

0.378

  

Total

63898

34702

15181

0.238

0.437

 

Mutant

Lane 1

25348

14531

5710

0.225

0.393

  

Lane 2

33030

18266

7254

0.220

0.397

  

Lane 3

42695

22349

9368

0.219

0.419

  

Lane 4

43338

22205

9290

0.214

0.418

  

Total

94651

41487

19214

0.203

0.463

  1. The third part displays the number of additional junctions (not in ENSEMBL annotation) identified by PASTA and TopHat for Run 1 and Run 2 respectively.