Table 2

Comparison of the four RNA extraction protocols in recently archived months old samples, by quantity of extracted RNA (in pg/μl) and RNA quality (RNA integrity number, RIN). NM = not measurable.

Sample

Parameter

Protocol 1

Protocol 2

Protocol 3

Protocol 4


Test 1

Test 2

Test 3

Test 1

Test 2

Test 3

Test 1

Test 2

Test 3

Test 1

Test 2

Test 3


15

RNA

26,717

75,411

4,886

13

56,455

105,945

21,028

4,606

115,194

184,832

44,758

176,904

RIN

2.5

2.3

2.3

NM

2.3

1.7

2.3

2.3

2

2

2.4

NM

16

RNA

33,327

935

2,392

16,843

108,984

42,670

39,120

4,989

38,314

283

195,149

3,590

RIN

NM

1.5

2.0

1.8

2.0

2.0

2.3

1.1

2.4

NM

2.1

2.6

17

RNA

12,321

15,143

24,286

16,752

94,246

16,075

4,211

73,366

59,072

25,535

102,053

48,459

RIN

2.4

2.3

2.1

1.9

2.0

2.1

2.4

1

2.2

NM

2.0

1.9

18

RNA

151,098

2,987

54,397

45,924

201,780

34,506

57,940

9,608

92,135

34

1,430

709

RIN

NM

2.5

1.1

2.3

1.9

2.6

2.2

2.3

2.6

1.4

2.4

1.5

19

RNA

574

5,060

8,632

44,190

6,633

9,835

7,852

15,146

12,487

5,893

177,677

38,735

RIN

2.6

2.4

2.3

1.6

NM

2.4

2.5

2.4

2.4

2.3

2.2

2.3

20

RNA

32,152

25,444

43,271

5,011

1,943

129,140

12,681

48,499

41,880

9,862

680,783

51,245

RIN

2.1

2.2

1.9

NM

2.1

1.9

2.1

2.1

2.3

NM

2.0

2.0

21

RNA

129

33,579

53,338

5,586

15,692

112,909

5,494

15,487

24,668

88,118

2,209,739

19,185

RIN

NM

2.5

2.3

NM

2.5

2.3

2.4

2.5

2.4

2.3

2.1

2.5

22

RNA

10,368

28,093

8,781

20,750

47,818

337,413

10,810

21,020

13,080

86,567

1,989,467

45,987

RIN

2.3

2.3

1.5

2.0

2.7

NM

2.2

2.4

2.4

2.2

NM

2.0

23

RNA

506

14,419

9,737

10,198

48,692

448,764

2,406

11,445

14,051

96,318

183

3,569

RIN

NM

2.3

1.6

2.0

2.0

NM

1.4

2.3

2.3

2.0

NM

2.3

24

RNA

79,734

42,491

70,454

94,699

98,831

122,026

4,048

104,887

18,737

23,212

437,911

35,536

RIN

NM

2.5

2.2

1.9

NM

2

2.2

2.4

2.4

2.8

1.9

2.3

25

RNA

434

7,322

23,764

55,950

51,147

23,779

11,479

3,797

987

51,691

12,175

57,595

RIN

1.7

2.4

2.2

2.0

1.9

2.5

2.5

2.5

2.4

1.8

NM

2.1

26

RNA

7,197

22,423

26,426

36,685

46,714

73,221

22,950

3,085

672

52,705

343,366

118,509

RIN

2.5

2.5

NM

2.2

NM

2.3

2.5

2.4

1.1

2.1

2.3

2.2

27

RNA

398

76

6,558

47,083

59,324

126,065

76,154

5,985

22,133

28,011

137

934

RIN

2.6

5.1

1.2

2.0

1.9

2.4

2.4

2.4

2.4

2.5

3.1

4.9

28

RNA

25,430

19,610

185,703

152

56,276

259,012

11,032

38,413

24,973

66,103

1,307,318

150,052

RIN

2.4

2.5

2.4

2.1

2.3

2.2

2.4

2.3

2.4

2.5

2.1

2.0


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

Open Data