PSET results updated with new 2019-nCoV genomes; 190 total genomes. Now just using the subset of genomes on GISAID marked as high quality sampled from humans (pangolin samples removed). Sequence IDs tested in this analysis listed here: ncov_ids_tested.zip (534 Bytes)
Table 1. Results from PSET analysis. The four Noblis assays were compared alongside the four assays from Corman and three assays from the CDC. Each assay was tested using 2019-nCoV (190 genomes) as the intended target. All off-target hits (TN, PF, FP) are to entries in NCBI BLAST databases (nt, gss, and env_nt).
| identifier | provider | PT | TP | TN | PF | FP | FN |
|---|---|---|---|---|---|---|---|
| 2019-nCoV-noblis_1 | Noblis | 134 | 56 | 373 | 0 | 0 | 0 |
| 2019-nCoV-noblis_2 | Noblis | 188 | 2 | 568 | 0 | 0 | 0 |
| 2019-nCoV-noblis_3 | Noblis | 189 | 1 | 439 | 0 | 0 | 0 |
| 2019-nCoV-noblis_4 | Noblis | 184 | 0 | 343 | 0 | 3 | 6 |
| ncov_e_gene | Corman et al | 187 | 2 | 42 | 353 | 15 | 1 |
| ncov_n_gene | Corman et al | 189 | 1 | 55 | 0 | 339 | 0 |
| ncov_rdrp_1 | Corman et al | 190 | 0 | 75 | 433 | 87 | 0 |
| ncov_rdrp_2 | Corman et al | 190 | 0 | 526 | 1 | 66 | 0 |
| cdc_n1 | CDC | 188 | 2 | 363 | 0 | 0 | 0 |
| cdc_n2 | CDC | 189 | 1 | 361 | 0 | 0 | 0 |
| cdc_n3 | CDC | 183 | 7 | 17 | 0 | 346 | 0 |