Global gene expression profile of cortices from Aifm1 KI and Hq mutant and control mouse

In this study, global transcriptome profiling was performed for Aifm1-KI and Hq mutant (as model of mitochondial defect) and control samples from mouse cortices, More than 20 million high-quality reads were obtained from each sample using Illumina platform. A consensus reference-guided assembly was generated for the transcriptome data from all samples and gene expression was analysed. Overall design: Total RNA was extracted from mutant and control samples and cDNA libraries were prepared. Sequencing was performed on Illumina HiSeq 4000 platform to generate 51 bp single-end reads. Pre-processing was performed to remove adapters and low-quality reads. Filtered high-quality reads were mapped on the mouse genome (mm10) using STAR aligner. To analyze gene expression, Htseq-count were used to quantify genes expression and EdgeR were used for differential expression.

本研究以小鼠皮层来源的Aifm1基因敲入（Aifm1-KI）样本、Hq突变体样本（作为线粒体缺陷模型）及对照样本为对象，开展全转录组表达谱分析。每个样本通过Illumina测序平台均可获得超过2000万条高质量测序读段。针对全部样本的转录组数据，构建了参考基因组引导的一致性转录组组装结果，并完成基因表达分析。实验设计概述：从突变体与对照样本中提取总RNA，构建cDNA文库；随后采用Illumina HiSeq 4000测序平台进行测序，生成51 bp单端读段。对测序数据进行预处理，去除测序接头与低质量读段。利用STAR比对工具将过滤后的高质量读段比对至小鼠参考基因组（mm10）。为分析基因表达水平，采用HTSeq-count对基因表达量进行定量，并通过EdgeR开展差异表达分析。