Comparison between MGI and Illumina sequencing platforms for whole genome sequencing
Comparison between MGI and Illumina sequencing platforms for whole genome sequencing
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DOI：
10.1007/s13258-021-01096-x
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发表时间：
2021-04-17
期刊：
影响因子：
2.1
通讯作者：
Kim, Seon-Young
中科院分区：
文献类型：
--
作者：
Jeon, Sol A.;Park, Jong Lyul;Kim, Seon-Young
Illumina下一代测序（NGS）系统是全球下一代测序市场的主要测序平台。另一方面，MGI Tech推出了一系列新的NGS设备，承诺比Illumina的测序仪器更快、更低价格地提供高质量的测序数据。目的比较两大平台的主要测序仪器——illumina的NovaSeq 6000和MGI的MGISEQ-2000和DNBSEQ-T7的性能，以检验MGISEQ-2000和DNBSEQ-T7测序仪器是否也适用于全基因组测序。方法利用3个平台对韩国肺癌患者的正常组织和肿瘤组织进行测序。然后，我们调用体细胞和种系变异的单核苷酸变异（SNVs）和插入和删除（indels）来比较三种平台之间的性能。结果在质量控制分析中，三个平台均表现出高质量的评分和较深的覆盖率。三个平台比较发现，MGISEQ-2000与NovaSeq 6000在种系snv和indels上最一致，DNBSEQ-T7与NovaSeq 6000在体细胞snv和indels上最一致。结论MGISEQ-2000和DNBSEQ-T7平台的性能与Illumina NovaSeq 6000平台相当，支持MGISEQ-2000和DNBSEQ-T7平台在实际基因组分析领域的潜在适用性。
Background Illumina next generation sequencing (NGS) systems are the major sequencing platform in worldwide next-generation sequencing market. On the other hand, MGI Tech launched a series of new NGS equipment that promises to deliver high-quality sequencing data faster and at lower prices than Illumina's sequencing instruments. Objective In this study, we compared the performance of the two platform's major sequencing instruments-Illumina's NovaSeq 6000 and MGI's MGISEQ-2000 and DNBSEQ-T7-to test whether the MGISEQ-2000 and DNBSEQ-T7 sequencing instruments are also suitable for whole genome sequencing. Methods We sequenced two pairs of normal and tumor tissues from Korean lung cancer patients using the three platforms. Then, we called single nucleotide variants (SNVs) and insertion and deletion (indels) for somatic and germline variants to compare the performance among the three platforms. Results In quality control analysis, all of the three platforms showed high-quality scores and deep coverages. Comparison among the three platforms revealed that MGISEQ-2000 is most concordant with NovaSeq 6000 for germline SNVs and indels, and DNBSEQ-T7 is most concordant with NovaSeq 6000 for somatic SNVs and indels. Conclusions These results suggest that the performances of the MGISEQ-2000 and DNBSEQ-T7 platforms are comparable to that of the Illumina NovaSeq 6000 platform and support the potential applicability of the MGISEQ-2000 and DNBSEQ-T7 platforms in actual genome analysis fields.