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Table 2 A) Number of splice variants detected using Cufflinks [17] starting from 80 million reads generated by different Library sample preparation.

From: Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis

Names

KIT

selection

input (ng)

% of single/multiple mapped reads

(STAR)

% of mapped reads

(STAR)

Splice variants (FPKM > 0.1, Coverage > 0)

nu05

NuGEN

None

0.5

68.49/20.31

88.80

21707

nu2

NuGEN

None

2

80.19/10.07

90.26

24410

nu100

NuGEN

None

100

80.10/9.85

89.95

25901

ss

ScriptSeq

PolyA+

1500

75.69/7.92

83.61

24135

ts1000

TruSeq unstranded

PolyA+

1000

87.41/9.20

96.61

24857

ts100

TruSeq unstranded

PolyA+

100

86.65/9.11

95.76

24701

tss

TruSeq stranded

PolyA+

100

81.18/14.67

95.85

24318

tss_total

TruSeq Total

Ribo-Zero

100

45.49/41.66

87.15

11993