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Table 1 Comparison of RNA quantity and quality isolated by three different commercially available kits

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

RNA extraction Comparison 1   Comparison 2  
High Pure RNeasy® p-value AllPrep® RNeasy® p-value
FFPE tissue input 10 μm 10 μm   10 μm 10 μm  
Successful extractions 10/10 10/10   10/10 10/10  
RNA yield (ng/μl)
 Minimum 2.2 8.1   8.0 6.7  
 Maximum 11.2 20.8   16.8 16.7  
 Mean (95% CI) 5.6 (3.4;8.2) 16.3 (13.1;19.0) < 0.001a 12.6 (10.8;14.6) 11.4 (9.1;13.8) 0.307a
 SD 3.1 3.8   2.5 3.1  
A260/A280
 Minimum 1.23 1.41   1.39 1.39  
 Maximum 1.62 1.69   1.59 1.57  
 Mean (95% CI) 1.38 (1.28;1.48) 1.55 (1.51;1.61) 0.003a 1.50 (1.43;1.55) 1.47 (1.43;1.52) 0.419a
 SD 0.13 0.06   0.07 0.06  
RIN-value
 Minimum 1.0 1.0   1.0 1.0  
 Maximum 1.2 2.5   2.5 2.5  
 Median 1.0 2.15 0.011b 1.0 2.5 0.044b
 IQR 0.10 0.88   0.15 0.40  
CT-value RNA18S5
 Minimum 21.2 23.6   26.1 24.9  
 Maximum 30.9 27.2   30.1 28.9  
 Mean (95% CI) 26.4 (23.7;28.9) 25.4 (24.3;26.3) 0.268a 28.0 (27.1;28.9) 27.4 (26.5;28.4) 0.088a
 SD 3.36 1.3   1.22 1.26  
  1. Comparison of RNA quantity and quality isolated by three different commercially available kits, High Pure FFPE RNA Micro kit, RNeasy® FFPE kit and AllPrep® DNA/RNA FFPE kit. SD Standard deviation, IQR Inter Quartile Range. a Student’s paired T-test, and b Wilcoxon matched-pairs signed rank test