Table 2

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

Cryopreserved

FFPE Tissue



Sample

Type

Tissue

Asterand Quality Grade

RIN for Cryoa

RIN for FFPEa

RNA conc (ng/uL)

PCR Ctb

# Genes Detectedc

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

Haller et al. BMC Clinical Pathology 2006 6:9   doi:10.1186/1472-6890-6-9

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