Table 1 Sequencing platforms, library preparation, and sequencing results
From: An optimized protocol for generation and analysis of Ion Proton sequencing reads for RNA-Seq
| Sequencer | Fragmentation methods | Initial RNA(μg) | Library name | Library insert size(bp) | Mean read length(bp) | Raw Q10 | Raw Q20 | Raw Q30 | Total reads | Total base |
|---|---|---|---|---|---|---|---|---|---|---|
| Ion Proton | Chemical | 2 | ProC_1 | 196 | 153 | 98.69 % | 70.85 % | 1.55 % | 19,448,438 | 2,975,809,154 |
| 2 | ProC_2 | 179 | 138 | 98.70 % | 69.81 % | 1.34 % | 25,262,605 | 3,505,548,278 | ||
| ProC_3 | 200 | 155 | 98.82 % | 72.14 % | 1.80 % | 8,139,486 | 1,263,964,775 | |||
| 2 | ProC_4 | 166 | 136 | 98.80 % | 72.31 % | 1.79 % | 23,866,259 | 3,267,082,715 | ||
| ProC_5 | 196 | 155 | 98.82 % | 73.90 % | 1.88 % | 15,461,415 | 2,408,389,343 | |||
| 0.2 | ProC_6 | 175 | 137 | 98.74 % | 69.79 % | 1.35 % | 22,673,571 | 3,123,633,358 | ||
| ProC_7 | 215 | 158 | 98.75 % | 70.67 % | 1.43 % | 13,098,194 | 2,076,154,568 | |||
| 0.2 | ProC_8 | 180 | 140 | 98.82 % | 71.57 % | 1.61 % | 23,142,854 | 3,251,986,105 | ||
| ProC_9 | 199 | 160 | 98.85 % | 73.24 % | 1.73 % | 12,219,286 | 1,955,402,424 | |||
| RNaseIII | 2 | ProR_1 | 89 | 94 | 99.25 % | 83.05 % | 4.04 % | 16,024,785 | 1,519,618,514 | |
| 2 | ProR_2 | 91 | 92 | 99.17 % | 81.95 % | 3.87 % | 25,434,638 | 2,364,470,896 | ||
| HiSeq 2000 | Chemical | 2 | HiSeq_1 | 193 | 90;90 | 98.11 %; 95.11 % | 97.03 %; 93.73 % | 91.86 %; 88.43 % | 60,313,246 | 10,856,384,280 |
| 2 | HiSeq_2 | 187 | 90;90 | 97.72 %; 94.53 % | 96.59 %; 93.06 % | 91.51 %; 87.58 % | 56,610,071 | 10,189,812,780 |