Table 6

Comparison of the four protocols for quantity and quality of extracted RNA for only samples that produced biologically-useful RNA (RIN ≥ 1.4) in recently archived months old FFPE samples. Case success is defined for each protocol as the percentage of samples where at least one of three RNA extraction attempts provided a RIN ≥ 1.4.

Months old samples:

Protocol 1

Protocol 2

Protocol 3

Protocol 4


FFPE tissue input

80 μm

10 μm

20 μm

50 μm

Successful extractions

34/42 (81%)

34/42 (81%)

39/42 (93%)

35/42 (83%)

Case success

14/14 (100%)

14/14 (100%)

14/14 (100%)

14/14 (100%)

RNA (pg/μl)

Minimum value

76

152

987

34

Maximum value

185,703

259,012

115,194

2,209,739

Mean

24,818

64,317

26,843

180,584

Median

14,781

48,255

15,146

51,245

Minimum RIN of 1.4

Minimum value

1.5

1.6

1.4

1.4

Maximum value

5.1

2.7

2.6

4.9

Mean

2.3

2.1

2.3

2.3

Median

2.3

2.0

2.4

2.2


Ribeiro-Silva et al. BMC Molecular Biology 2007 8:118   doi:10.1186/1471-2199-8-118

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