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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.

From: RNA extraction from ten year old formalin-fixed paraffin-embedded breast cancer samples: a comparison of column purification and magnetic bead-based technologies

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