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
RNA extraction	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)	< 0.001^a	12.6 (10.8;14.6)	11.4 (9.1;13.8)	0.307^a
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)	0.003^a	1.50 (1.43;1.55)	1.47 (1.43;1.52)	0.419^a
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	0.011^b	1.0	2.5	0.044^b
IQR	0.10	0.88		0.15	0.40
C_T-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)	0.268^a	28.0 (27.1;28.9)	27.4 (26.5;28.4)	0.088^a
SD	3.36	1.3		1.22	1.26

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

Back to article page