mRNA-seq analysis of mouse hepatocellular carcinoma cell lines. mRNA-seq analysis of mouse hepatocellular carcinoma cell lines

There are few well-characterized syngeneic murine models for hepatocellular carcinoma (HCC), which limits immunological studies and the development of immunotherapies for HCC. We previously established an oncogene-induced spontaneous HCC mouse model based on transposon-mediated oncogene (AKT and NRASG12V) insertion into the genome of hepatocytes to induce tumorigenesis. Here is the result of transcriptomic analysis of two pool cell clones (pool #1 and pool #8) and three single cell clones (NHRI-1-F1, NHRI-8-A4 and NHRI-8-C4) from Akt/N-Ras-induced HCC mouse model, also including a commercial murine hepatocellular carcinoma cell line (Hepa 1-6) as control. Overall design: Before cells reaching confluence, total RNA was extracted from each cell clone by using RNeasy mini kit (QIAGEN, Hilden, Germany). The quality of RNA was validated by a Bioanalyzer (Agilent, Santa Clara, CA, USA) and subjected to Welgene Biotech Co., Ltd. for RNA-sequencing. Clean reads of each sample provided by the sequencing Labs were used for downstream bioinformatic analysis.目前鲜有经过充分表征的肝细胞癌（hepatocellular carcinoma, HCC）同基因小鼠模型，这一现状制约了肝细胞癌的免疫学研究与免疫治疗的研发。我们此前基于转座子介导的致癌基因（AKT与NRASG12V）插入肝细胞基因组以诱导肿瘤发生的策略，构建了一种致癌基因诱导型自发性肝细胞癌小鼠模型。本数据集包含来自该Akt/N-Ras诱导型肝细胞癌小鼠模型的2个混合细胞克隆（pool #1与pool #8）以及3个单细胞克隆（NHRI-1-F1、NHRI-8-A4与NHRI-8-C4）的转录组分析结果，同时纳入商业化小鼠肝细胞癌细胞系（Hepa 1-6）作为对照。实验整体设计如下：在细胞汇合度达到饱和前，使用RNeasy迷你试剂盒（QIAGEN，德国希尔德市）提取各细胞克隆的总RNA。通过生物分析仪（Agilent，美国加利福尼亚州圣克拉拉市）验证RNA质量后，将样本送至维健生物科技有限公司（Welgene Biotech Co., Ltd.）进行RNA测序。测序实验室提供的各样本洁净读段（clean reads）将用于后续生物信息学分析。