Transcriptional profiling of degraded RNA in cryopreserved and fixed tissue samples obtained at autopsy

BMC Clinical Pathology

Table 2 Results for RNA Obtained from Formalin-fixed, Paraffin-embedded Tissue Specimens

			Cryopreserved		FFPE Tissue
Sample	Type	Tissue	Asterand Quality Grade	RIN for Cryo^a	RIN for FFPE^a	RNA conc (ng/uL)	PCR Ct^b	# Genes Detected^c	Correlation of Replicates (R²) ^d
1	Kidney	Normal	Passed	9.2	2.4	153	30	438	0.91
2	Kidney	Normal	Passed	8.9	2.3	120	25	452	0.98
3	Stomach	Normal	Passed	8.8	2.4	88	31	310	0.86
	Passing RNA Ave			9.0	2.4	120	29	400	0.92
4	Breast	Tumor	Failed	2.3	1.9	119	30	426	0.95
5	Breast	Tumor	Failed	2.5	1.2	71	25	338	0.78
6	Lung	Tumor	Failed	2.4	1.0	54	29	457	0.64
7	Kidney	Normal	Failed	2.4	2.3	87	32	420	0.91
8	Kidney	Normal	Failed	2.7	2.3	61	30	229	0.91
9	Kidney	Normal	Failed	NA	2.6	133	32	377	0.69
10	Kidney	Normal	Failed	2.4	2.4	41	32	164	0.56
	Failing RNA Ave			2.5	2.0	81	30	344.4	0.78

NA = Not Available
^a RNA Integrity number as assessed by 2100 Bioanalyzer
^b Cycle threshold of amplification of RPL-13a, results compared to Ct of intact total RNA
^c Genes detected over background by Beadstudio software with a certainty of p = 0.99
^d Technical replicates of same RNA extraction run in separate array experiments

ISSN: 1472-6890