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 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.