Table 1 Coverage selectivity by method
From: Assessing characteristics of RNA amplification methods for single cell RNA sequencing
Source | Protocol | Genome coverage | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
% exons (excluding rRNA & mitochondria) | % intronic | % rRNA (nuclear) | % rRNA (mitochondrial) | % mitochondrial (non-rRNA) | |||||||
Ave. | Sd. | Ave. | Sd. | Ave. | Sd. | Ave. | Sd. | Ave. | Sd. | ||
HBR | aRNA | 59.07 | 5.70 | 23.29 | 4.68 | 0.03 | 0.02 | 4.82 | 1.62 | 12.29 | 2.79 |
SmartSeq Plus | 41.00 | 0.86 | 39.56 | 0.85 | 1.28 | 0.07 | 10.02 | 0.43 | 7.77 | 0.26 | |
NuGen | 29.27 | 4.97 | 45.09 | 5.88 | 1.33 | 0.40 | 20.38 | 5.19 | 3.65 | 0.59 | |
Bulk (Poly-A) | 80.13 | - | 8.52 | - | 0.08 | - | 1.96 | - | 9.01 | - | |
Bulk (rRNA-depleted) | 61.44 | 0.54 | 37.89 | 0.45 | 0.03 | 0.01 | 0.10 | 0.04 | 0.25 | 0.04 | |
UHR | aRNA | 71.57 | 2.34 | 23.02 | 2.60 | 0.06 | 0.05 | 1.61 | 0.19 | 3.38 | 0.59 |
SmartSeq Plus | 35.89 | 0.89 | 52.84 | 0.94 | 0.31 | 0.02 | 6.20 | 0.26 | 3.85 | 0.12 | |
NuGen | 33.00 | 4.02 | 39.33 | 8.99 | 1.25 | 0.57 | 23.47 | 7.31 | 2.59 | 0.62 | |
Bulk (Poly-A) | 86.99 | - | 7.11 | - | 0.11 | - | 0.47 | - | 5.09 | - | |
Bulk (rRNA-depleted) | 58.17 | 0.34 | 41.28 | 0.29 | 0.02 | 0.01 | 0.03 | 0.01 | 0.18 | 0.02 | |