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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