使用 C1 系统进行癌症的单细胞 DNA-Seq 和 RNA-Seq。

Single-Cell DNA-Seq and RNA-Seq in Cancer Using the C1 System.

机构信息

Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Chiba, Japan.

出版信息

Adv Exp Med Biol. 2019;1129:27-50. doi: 10.1007/978-981-13-6037-4_3.

DOI:10.1007/978-981-13-6037-4_3

PMID:30968359

Abstract

Heterogeneous phenotypes of cancer cells enable them to adapt to various environments. The heterogeneity results from diversity of genome, transcriptome, and epigenome at a single-cell level. The C1 system can automatically perform single-cell capture and whole genome amplification (WGA) or whole transcription amplification (WTA) by MDA or Smart-Seq, respectively. Here, we describe the protocols for WGA and WTA from a single cell by using the C1 system and the protocols for sequence library preparation from amplified gDNA and cDNA. We also described about the computational analysis for single-cell data of cancer.

摘要

癌细胞的异质性表型使它们能够适应各种环境。这种异质性源于单细胞水平上基因组、转录组和表观基因组的多样性。C1 系统可以通过 MDA 或 Smart-Seq 分别自动进行单细胞捕获和全基因组扩增 (WGA) 或全转录扩增 (WTA)。在这里，我们描述了使用 C1 系统从单个细胞进行 WGA 和 WTA 的方案，以及从扩增的 gDNA 和 cDNA 制备测序文库的方案。我们还描述了用于癌症单细胞数据的计算分析。