Transcriptomic analysis of HCV+ vs HCV- hepatocytes and tumoral cells. Transcriptomic analysis of HCV+ vs HCV- hepatocytes and tumoral cells

HCV+ cells were detected by smiFISH on liver section of a patient with hepatocellular carcinoma. Clusters of HCV+ and HCV- cells were captured by laser microdissection and transriptomes analysed by RNA sequening. Highly sensitive single molecule fluorescent in situ hybridization applied to frozen tissue sections of a hepatitis C patient allowed the delineation of clusters of infected hepatocytes. Laser micro-dissection followed by RNAseq analysis of HCV-positive and -negative regions from the tumoral and non-tumoral tissues from the same patient revealed HCV-related deregulation of expression of genes in the tumor and in the non-tumoral tissue. Overall design: mRNA profiles of clusters of cells HCV+ or HCV- from one patient were generated by deep sequencing using Illumina HiSeq2000.

本数据集针对1例肝细胞癌患者的肝脏切片开展研究：通过单分子荧光原位杂交（smiFISH）检测到丙型肝炎病毒（Hepatitis C Virus，HCV）阳性（HCV+）细胞。研究人员通过激光显微切割技术捕获了HCV阳性与HCV阴性（HCV-）细胞簇，并采用RNA测序对其转录组进行分析。针对丙型肝炎患者的冰冻组织切片应用高灵敏度单分子荧光原位杂交技术，可清晰界定受感染的肝细胞簇。对同一患者肿瘤组织与非肿瘤组织中的HCV阳性及阴性区域实施激光显微切割后行RNA测序分析，结果显示HCV相关的基因表达失调现象同时存在于肿瘤组织与非肿瘤组织中。整体实验设计：采用Illumina HiSeq2000平台进行深度测序，获取了同一名患者的HCV阳性与HCV阴性细胞簇的mRNA表达谱。