Gene expression data of patients with medulloblastoma from "Prediction of the 3D cancer genome from whole-genome sequencing using InfoHiC"

Total RNA were extracted from fresh frozen tissues of patients with medulloblastoma using the Maxwell RSC RNA FFPE Kit (Promega, Madison, WI, USA). The RNA-seq library was prepared using the SureSelectXT RNA Direct Library Kit (Agilent Technologies, Santa Clara, CA, USA) and sequenced using the Illumina NovaSeq6000 platform. Paired-end RNA-seq reads (101 bp) were mapped to GRCh37 using STAR (Dobin et al. 2013), and gene expression was quantified using Cufflinks (Trapnell et al. 2010).本研究使用Maxwell RSC RNA FFPE试剂盒（Promega公司，美国威斯康星州麦迪逊市），从髓母细胞瘤（medulloblastoma）患者的新鲜冷冻组织中提取总RNA。使用SureSelectXT RNA直接建库试剂盒（安捷伦科技公司，美国加利福尼亚州圣克拉拉市）构建RNA测序文库，并通过Illumina NovaSeq6000平台完成测序。 采用STAR（Dobin等人，2013）软件将101 bp的双端RNA测序读段比对至参考基因组GRCh37，并使用Cufflinks（Trapnell等人，2010）软件对基因表达量进行定量。