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bioRxiv · 10.1101/004366

Quantitative comparison of single-cell sequencing methods using hippocampal neurons

Luwen Ning·Guan Wang·Zhoufang Li·Wen Hu·Qingming Hou·Yin Tong·Meng Zhang·Li Qin·Xiaoping Chen·Heng-Ye Man·Pinghua Liu·Jiankui He
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Abstract

Single-cell genomic analysis has grown rapidly in recent years and will find widespread applications in various fields of biology, including cancer biology, development, immunology, pre-implantation genetic diagnosis, and neurobiology. In this study, we amplified genomic DNA from individual hippocampal neurons using one of three single-cell DNA amplification methods (multiple annealing and looping-based amplification cycles (MALBAC), multiple displacement amplification (MDA), and GenomePlex whole genome amplification (WGA4)). We then systematically evaluated the genome coverage, GC-bias, reproducibility, and copy number variations among individual neurons. Our results showed that single-cell genome sequencing results obtained from the MALBAC and WGA4 methods are highly reproducible and have a high success rate. Chromosome-level and subchromosomal-level copy number variations among individual neurons can be detected.

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Luwen Ning, Guan Wang, Zhoufang Li, Wen Hu, Qingming Hou, Yin Tong, Meng Zhang, Li Qin, Xiaoping Chen, Heng-Ye Man, Pinghua Liu, Jiankui He. 2014-04-21. Quantitative comparison of single-cell sequencing methods using hippocampal neurons. https://doi.org/10.1101/004366

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