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Table 2 Comparison of DNA quantity and quality isolated by three commercially available kits

From: Quantity and quality of nucleic acids extracted from archival formalin fixed paraffin embedded prostate biopsies

DNA extraction

Comparison 1

 

Comparison 2

 

High Pure

QIAamp®

p-value

AllPrep®

QIAamp®

p-value

FFPE tissue input

10 μm

10 μm

 

10 μm

10 μm

 

Successful extractions

10/10

10/10

 

10/10

10/10

 

DNA yield (ng/μl)

 Minimum

1.9

1.9

 

3.5

2.7

 

 Maximum

13.0

8.5

 

5.4

4.4

 

 Mean (95% CI)

5.0 (2.4;7.6)

4.4 (2.7;5.6)

0.623a

4.4 (3.9;4.7)

3.8 (3.3;4.2)

0.059a

 SD

3.3

1.9

 

0.6

0.6

 

A260/A280

 Minimum

1.06

1.49

 

1.27

1.51

 

 Maximum

1.69

2.66

 

1.48

1.87

 

 Mean (95% CI)

1.37 (1.27;1.57)

1.89 (1.58;2.17)

0.002a

1.36 (1.29;1.41)

1.68 (1.62;1.79)

< 0.001a

 SD

0.19

0.38

 

0.07

0.12

 

CT -value RNA18S5

 Minimum

24.7

27.0

 

26.6

27.9

 

 Maximum

29.5

31.1

 

28.5

30.9

 

 Mean (95% CI)

27.1 (26.1;28.1)

28.6 (27.4;29.2)

0.011a

27.3 (26.9;27.9)

29.0 (28.2;30.1)

< 0.001a

 SD

1.29

1.17

 

0.68

1.23

 
  1. Comparison of DNA quantity and quality isolated by three commercially available kits; High Pure FFPET DNA Isolation kit, QIAamp® DNA FFPE Tissue kit, and AllPrep® DNA/RNA FFPE kit. SD – Standard Deviation, CI – Confidence Interval. a Student’s paired T-test
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BMC Medical Research Methodology

ISSN: 1471-2288

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