Table 2 Comparison of coverage obtained with different bisulphite library and PhiX loading concentrations
Library preparation method | Library preparation kit name | Input amount (ng) | DNA samples | Sequencing platform | Bisulphite library loading concentration | PhiX loading concentration | % of spike-in | Coverage/lane |
|---|---|---|---|---|---|---|---|---|
Post-BS | TruMethyl WG v1.9 | 200 | Cell line (LNCaP) | HiSeq X Ten | 300 pM | 250 pM | 25% | 8.70× |
Cell line (LNCaP) | 250 pM | 250 pM | 14.50× | |||||
Cell line (LNCaP) | 300 pM | 15.19× | ||||||
1. Blood sample (2) | 250 pM | 15.46× | ||||||
2. Blood sample (3) | 250 pM | 13.87× | ||||||
3. Blood sample (4) | 250 pM | 12.15× | ||||||
4. Blood sample (6) | 300 pM | 20.24× | ||||||
5. Blood sample (23) | 300 pM | 16.59× | ||||||
6. Blood sample (24) | 300 pM | 19.67× |