小柯机器人

英国伦敦大学学院Stephan Beck、Miljana Tani等研究人员合作完成五种靶向DNA甲基组分析商业平台的比较。该研究于2022年6月2日在线发表于国际一流学术期刊《自然—生物技术》。

Author: Tani, Miljana, Moghul, Ismail, Rodney, Simon, Dhami, Pawan, Vaikkinen, Heli, Ambrose, John, Barrett, James, Feber, Andrew, Beck, Stephan

Issue&Volume: 2022-06-02

Abstract: Targeted bisulfite sequencing (TBS) has become the method of choice for the cost-effective, targeted analysis of the human methylome at base-pair resolution. In this study, we benchmarked five commercially available TBS platforms—three hybridization capture-based (Agilent, Roche and Illumina) and two reduced-representation-based (Diagenode and NuGen)—across 11 samples. Two samples were also compared with whole-genome DNA methylation sequencing with the Illumina and Oxford Nanopore platforms. We assessed workflow complexity, on/off-target performance, coverage, accuracy and reproducibility. Although all platforms produced robust and reproducible data, major differences in the number and identity of the CpG sites covered make it difficult to compare datasets generated on different platforms. To overcome this limitation, we applied imputation and show that it improves interoperability from an average of 10.35% (0.8 million) to 97% (7.6 million) common CpG sites. Our study provides guidance on which TBS platform to use for different methylome features and offers an imputation-based harmonization solution that allows comparative, integrative analysis.

DOI: 10.1038/s41587-022-01336-9

Source: https://www.nature.com/articles/s41587-022-01336-9

Nature Biotechnology：《自然—生物技术》，创刊于1996年。隶属于施普林格·自然出版集团，最新IF：68.164
官方网址：https://www.nature.com/nbt/
投稿链接：https://mts-nbt.nature.com/cgi-bin/main.plex