MGA-seq is an efficient tool for genetic variants and extrachromosomal DNA detection in cancer cell [RNA-Seq]. MGA-seq is an efficient tool for genetic variants and extrachromosomal DNA detection in cancer cell [RNA-Seq]

We developed MGA-seq for detecting both chromatin spatial contacts and WGS information at the same time in clinical samples, then we combine the two kind of information to detecte small variation, large structural variation, homogenously staining regions, and extrachromosomal DNA. RNA-seq was employed to measured the RNA transcription level of genes within the amplified region Overall design: RNA was extracted using the RNAiso Plus (Takara, 9109) according to manufacturer’s protocol. Sequencing libraries were prepared using the VAHTS Stranded mRNA-Seq Library Prep Kit (Vazyme, NR602-02) according to manufacturer's protocol.

我们开发了MGA-seq技术，可在临床样本中同时检测染色质空间互作（chromatin spatial contacts）与全基因组测序（Whole Genome Sequencing, WGS）信息；随后整合两类信息，以鉴定小变异、大结构变异、均匀染色区域（homogeneously staining regions）以及染色体外DNA（extrachromosomal DNA）。本研究采用RNA测序（RNA-seq）对扩增区域内基因的RNA转录水平进行检测。总体实验设计：依照制造商的操作手册，使用RNAiso Plus（Takara, 9109）提取总RNA；使用VAHTS链特异性mRNA-seq文库制备试剂盒（Vazyme, NR602-02）构建测序文库。