Table 2 Quantification and genotyping results from the case study
From: rprimer: an R/bioconductor package for design of degenerate oligos for sequence variable viruses
Sample number | Assay A: RT-qPCR based quantification | Assay B: RT-PCR based genotyping | |||
|---|---|---|---|---|---|
Quantity (copies/ml), assay A | Quantity (copies/ml), reference assay (ISO 151216-1) | Bias (quantity from assay A/quantity from reference assay) | Capsid type | Polymerase type | |
1 | 2.00E+09 | 1.08E+09 | 1.85 | GI.P13 (GI.Pd) | GI.3 |
2 | 1.19E+08 | 1.27E+08 | 0.94 | GI.P1 | GI.1 |
3 | 1.07E+09 | 9.83E+08 | 1.09 | GI.P7 | GI.7 |
4 | 2.85E+08 | 3.43E+08 | 0.83 | GI.P4 | GI.4 |
5 | 2.44E+08 | 1.71E+08 | 1.43 | GI.P13 (GI.Pd) | GI.3 |
6 | 2.33E+07 | 2.62E+07 | 0.89 | GI.P4 | GI.4 |
7 | 7.95E+07 | 5.56E+07 | 1.43 | GI.P4 | GI.4 |
8 | 3.25E+06 | 3.27E+06 | 0.99 | GI.P13 (GI.Pd) | GI.3 |
9 | 8.89E+05 | 9.51E+05 | 0.93 | GI.P13 (GI.Pd) | GI.3 |
10 | 4.72E+06 | 5.77E+06 | 0.82 | G1.P2 | GI.2 |