Table 1 Cancer cell lines used for accurateness testing. Coverage and number of deleted and amplified genes extracted from COSMIC are presented. Copy numbers were called from sequenced genomes and experimentally confirmed with PICNIC [23]
From: MetaCNV - a consensus approach to infer accurate copy numbers from low coverage data
Cancer cell line | Coverage | # of amplified genes | # of deleted genes | Total # of genes with CNVs | Ratio amplified/deleted genes |
|---|---|---|---|---|---|
HCC1187 | 104x | 154 | 46 | 200 | 3.48 |
HCC2218 | 93x | 200 | 36 | 236 | 5.55 |
MCF7 | 62x | 49 | 30 | 79 | 1.63 |
PC3 | 76x | 179 | 222 | 401 | 0.81 |
Single-cell SKBR3 | 6 stepwise merged single cells with 1x to 6x | 161 | 29 | 190 | 5.55 |