Cross-platform comparisons for targeted bisulfite sequencing of MGISEQ-2000 and NovaSeq6000

Clinical Epigenetics

Table 1 The summary QC of the data of MGISEQ-2000

WGS library ratio (%)	Total data (M)	BS Data (M)	High-quality reads ratio (%)	Mapping ratio (%)	On-target ratio (%)	Uniformity ratio (%)
50	405.96	160.38	78–84	50–61	72–84	55–59
30	429.89	272.31	80–85	50–62	72–84	55–59
10	396.09	315.93	79–85	50–61	72–84	55–59
0	359.59	312.14	74–81	50–61	72–84	55–58

“WGS library ratio” represented the percentage of spike-in WGS library. “Total Data” and “BS Data” represented total data yield and bisulfite-sequencing data yield with the different contents of WGS library, respectively. “High-quality reads ratio” demonstrated the ratio of high-quality reads (phred > 30) in BS data. “Mapping Ratio” represented the ratio of BS reads which could be aligned to human genome. ‘On-target Ratio’ represented the ratio of mapping reads which were amplified by panel primers and located in targeted genome regions. ‘Uniformity Ratio’ demonstrated the uniformity of panel targeted priming which was calculated using the ratio of CpGs whose coverages were larger than 25% median coverage. The values before “–” represented the minimum values, while those after “–” represented the maximum values

ISSN: 1868-7083