Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.
Danish Institute of Advanced Study (D-IAS), Functional Genomics and Metabolism Unit, Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, 5230, Denmark.
Genome Biol. 2019 Apr 9;20(1):70. doi: 10.1186/s13059-019-1676-5.
Single-cell RNA-seq technologies require library preparation prior to sequencing. Here, we present the first report to compare the cheaper BGISEQ-500 platform to the Illumina HiSeq platform for scRNA-seq. We generate a resource of 468 single cells and 1297 matched single cDNA samples, performing SMARTer and Smart-seq2 protocols on two cell lines with RNA spike-ins. We sequence these libraries on both platforms using single- and paired-end reads. The platforms have comparable sensitivity and accuracy in terms of quantification of gene expression, and low technical variability. Our study provides a standardized scRNA-seq resource to benchmark new scRNA-seq library preparation protocols and sequencing platforms.
单细胞 RNA-seq 技术需要在测序前进行文库制备。在这里，我们首次报告了将更便宜的 BGISEQ-500 平台与 Illumina HiSeq 平台进行比较的结果，用于 scRNA-seq。我们生成了 468 个单细胞和 1297 个匹配的单细胞 cDNA 样本资源，在两个带有 RNA Spike-ins 的细胞系上分别使用 SMARTer 和 Smart-seq2 方案进行实验。我们在两个平台上使用单端和双端reads 对这些文库进行测序。在基因表达定量方面，这两个平台在灵敏度和准确性方面具有可比性，并且技术变异性较低。我们的研究提供了一个标准化的 scRNA-seq 资源，可用于基准测试新的 scRNA-seq 文库制备方案和测序平台。
