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Table 1 Mapping percentages for the different RNA-seq methods and samples

From: mRNA-seq whole transcriptome profiling of fresh frozen versus archived fixed tissues

  mRNA-seq RiboZero Nugen
FF FFPE FFPE old FF FFPE FF FFPE
n = 6 n = 5 n = 3 n = 3 n = 3 n = 3 n = 6
Exons 58 (51–63) 29.2 (16.6–38.8) 20.1 (13.8–32.2) 21.4 (14.9–30) 8.4 (0.6–12.7) 20.3 (16–22.7) 3.9 (0.8–7)
Intronic/intergenic 25 (20–32) 28.2 (22.3–32.6) 23.3 (18.9–27.4) 44.4 (35.1–55.5) 70.2 (61.7–75.2) 65.1 (63.1–67.9) 32.5 (24.5–43.1)
rRNA 1.3 (0.9–1.6) 12.7 (4.17–17.8) 6.4 (2.7–12.9) 24.7 (1.15–45.3) 5.3 (0.9–13.4) 0.07 (0.05–0.08) 1.2 (0.3–2.2)
Multiple alignment 11.9 (9.5–15) 5.9 (3.8–7.2) 4.2 (2.63–6) 6.3 (2–10) 6.5 (6.2–6.6) 9.6 (8.7–10.3) 3.6 (2.7–4.7)
Unmapped 3.8 (3.7–4) 24 (10.9–44.9) 45.7 (31.6–54) 3 (2.7–3.3) 9.6 (5.3–17.8) 4.8 (4.2–6.1) 58.7 (43–67.8)
  1. Values presented as mean percentage (range)
  2. n = number of measurements (#of tumor samples X number of initial RNA amounts)