Comparison of single cell sequencing data between two whole genome amplification methods on two sequencing platforms

• DOI: 10.1038/s41598-018-23325-2
• Publication Date: 2018-03-15T15:37:34Z
• Authors: DaYang Chen; HeFu Zhen; Yong Qiu; Ping Liu; Peng Zeng; Jun Xia; QianYu Shi; Lin Xie; Zhu Zhu; Ya Gao; GuoDong Huang; Jian Wang; HuanMing Yang; Fang Chen
• Keywords: Single cell sequencing; Single-Cell Analysis

Abstract Research based on a strategy of single-cell low-coverage whole genome sequencing (SLWGS) has enabled better reproducibility and accuracy for detection copy number variations (CNVs). The amplification (WGA) method platform are critical factors successful SLWGS (<0.1 × coverage). In this study, we compared single cell multiple cells data produced by the HiSeq2000 Ion Proton platforms using two WGA kits then comprehensively evaluated GC-bias, reproducibility, uniformity CNV among different experimental combinations. Our analysis demonstrated that PicoPLEX Kit resulted in higher lower error frequency but more GC-bias than GenomePlex Single Cell (WGA4 kit) independent platform. While platform, WGA4 kit (both cells) had less those Kit. Moreover, these platforms, depending number, performance was both sensitivity specificity detection. results can help researchers who plan to use or select appropriate conditions their applications.