Table 1

Composition of LongSAGE libraries

Library

S1885

S1886

S1887

S1888

S1889

S1890

S1891

S1892

S1893


Mouse-Condition

13N-AS*

13N-RAD†

13N-CR‡

15N-AS

15N-RAD

15N-CR

13R-AS

13R-RAD

13R-CR

Unfiltered Total Tags

310,516

318,102

339,864

338,210

310,072

326,870

337,546

314,440

335,504

No. of Bad Tags

955

1,010

1,083

1,097

983

737

900

744

832


Minus Bad Tags


Total Tags

309,561

317,092

338,781

337,113

309,089

326,133

336,646

313,696

334,672

Tag Types

79,201

96,973

99,730

81,850

84,499

88,249

79,859

91,438

90,675

No. of Duplicate Ditags

19,761

12,220

12,678

21,973

17,471

12,836

24,552

12,786

13,127

% of Duplicate Ditags

6.38

3.85

3.74

6.52

5.65

3.94

7.29

4.08

3.92

Average QF§ of Tags

0.85

0.88

0.87

0.86

0.89

0.88

0.88

0.80

0.87

No. of Tags QF < 0.95

63,057

62,872

71,576

68,993

54,627

54,470

68,981

101,215

69,647


Q ≥ 0.95


Total Tags

246,504

254,220

267,205

268,120

254,462

271,663

267,665

212,481

265,025

Tag Types

52,033

67,542

66,748

52,606

59,374

64,985

53,715

54,682

64,837

Total Tags Combined

2,307,345

Tag Types Combined

263,199

No. of LDTs II Type I

124

72

174

179

84

186

164

118

301

No. of LDTs Type II

19

9

54

56

33

40

60

24

59


Minus LDTs


Total Tags

246,361

254,139

266,977

267,885

254,345

271,437

267,441

212,339

264,665

Tag Types

52,031

67,540

66,746

52,604

59,372

64,983

53,713

54,680

64,835

Total Tags Combined

2,305,589

Tag Types Combined

263,197


* AS, Androgen-sensitive

† RAD, Responsive to androgen-deprivation

‡ CR, Castration-recurrent

§ QF, Quality Factor

II LDTs, Linker-derived tags

Romanuik et al. BMC Medical Genomics 2010 3:43   doi:10.1186/1755-8794-3-43

Open Data