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Table 1 Comparison of the four RNA extraction protocols in ten year old samples, by quantity of extracted RNA (in pg/μl) and RNA quality (by 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
1 RNA 91,464 73,861 29,225 32,507 110,621 47,418 21,078 53,731 77,500 231,085 301,416 258,839
  RIN NM 2.3 2.0 3.5 3.2 NM 2.2 NM 2.1 NM 2 NM
2 RNA 27,124 4,836 17,711 165,588 63,934 159,656 38,415 43,935 17,635 144,770 110,373 187,249
  RIN 1.7 1.1 2.0 2.1 NM 2.1 2.2 2.4 1.9 2.0 2.3 2.2
3 RNA 1,236 1,278 6,012 11,050 5,570 7,671 1,416 1,314 18,106 30,239 40,763 105,048
  RIN 2.3 1.0 2.2 2.3 NM 2.3 2.4 2.5 2.6 1.8 2.2 5.5
4 RNA 5,103 31,145 18,353 71,598 25,791 18,397 34,381 20,229 8,557 122,541 90,564 86,324
  RIN NM 2.3 NM 2.2 2.9 NM 2.3 2.2 2.1 NM NM NM
5 RNA 5,146 2,893 7,262 43,901 5,140 8,624 29,711 14,415 11,391 68,768 72,550 76,048
  RIN 1.7 1.1 2.4 NM 2.3 2.3 NM 2.4 2.3 2.2 2.2 6.1
6 RNA 11,416 4,282 975 99,045 27,804 30,150 18,686 14,128 31,289 23,427 84,711 98,565
  RIN NM 1.0 1.0 2.2 2.7 NM 2.4 2.4 2.1 NM 2.2 NM
7 RNA 160,254 6,878 7,584 98,598 56,896 39,390 16,501 48,935 6,070 62,394 196,847 150,394
  RIN NM 1.0 1.1 2.2 2.5 2.2 1.2 1.0 1.1 2.6 2.2 2.2
8 RNA 65,752 2,088 9,915 66,706 28,998 18,004 46,519 12,300 31,952 12,900 87,934 85,429
  RIN 1.2 1.8 2.1 3.2 NM NM 2.4 2.4 2.2 NM 2.2 1.9
9 RNA 15,123 15,579 20,517 32,962 21,034 265,694 137,594 65,451 46,768 101,909 132,994 95,334
  RIN 1.5 1.1 2.2 5.2 NM NM 2.2 2.1 2.1 NM 2.3 2.1
10 RNA 31,042 36,583 12,392 68,465 26,950 25,458 35,551 74,122 11,543 35,885 76,333 42,892
  RIN 2.2 2.3 2.1 NM 2.3 2.3 3.6 4.4 2.2 NM 2.3 1.9
11 RNA 19,588 14,991 11,954 30,333 26,505 18,184 34,319 39,265 12,859 39,093 56,516 17,502
  RIN 2.2 1.4 2.1 NM 2.3 2.4 2.5 NM 1.9 2.2 2.2 2.1
12 RNA 5,883 3,042 10,918 29,701 106,627 35,362 67,125 28,579 12,037 188,026 314,693 91,516
  RIN 2 1 NM 1.5 2.1 NM 2.3 2.4 2.3 2.1 2.1 2.1
13 RNA 30,578 36,224 3,943 45,229 74,659 5,371 21,065 11,367 6,659 111,666 190,653 33,443
  RIN 2.2 2.3 1.8 NM 2.1 NM 2.2 2.3 2.1 2.1 2 NM
14 RNA 3,099 4,057 4,915 22,218 1,650 12,581 9,518 4,916 17,807 9,864 7,790 39,253
  RIN 2.3 2.5 1.9 2.4 2.3 NM 2.2 NM 2.3 2.3 NM 2.1