Next Generation Sequencing Facilitates Quantitative Analysis of HePG2i cell line with and without DOX induced GATA4 expression Transcriptomes. Next Generation Sequencing Facilitates Quantitative Analysis of HePG2i cell line with and without DOX induced GATA4 expression Transcriptomes

HePG2i cell line mRNA profiles of DOX induced GATA4 expression and non-DOX induced were generated by deep sequencing, in triplicate, using Illumina HiSeq 10000. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. Overall design: HePG2i cell line mRNA profiles of DOX induced GATA4 expression and non-DOX induced were generated by deep sequencing, in triplicate, using Illumina HiSeq 1000.

本研究采用Illumina HiSeq 10000平台，对经多柔比星（DOX）诱导GATA4表达及未诱导的HePG2i细胞系进行三次重复深度测序，获取其mRNA转录组谱。对通过质量过滤的序列读段，在转录本异构体层面采用两种方法开展分析：一是Burrows-Wheeler比对工具（BWA）结合方差分析（ANOVA），二是TopHat与Cufflinks联用分析。实验整体设计：采用Illumina HiSeq 1000平台，对经多柔比星（DOX）诱导GATA4表达及未诱导的HePG2i细胞系进行三次重复深度测序，获取其mRNA转录组谱。