Transcriptome Analysis of Wild Type and HMGB1 knock-out iSLK BAC16 cells

Purpose: RNA sequencing (RNA-seq) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived transcriptome profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis HMGB1 WT or KO iSLK BAC16 cells transcriptome were analyzed by RNA seq. cells were or were not induced KSHV lytic replication with doxycycline and sodium butyrate.

研究目的：RNA测序（RNA-seq）已革新了基于系统生物学的细胞通路分析。本研究旨在对比基于新一代测序（Next-Generation Sequencing, NGS）的转录组谱分析（RNA-seq）与微阵列（microarray）、定量反转录聚合酶链反应（quantitative reverse transcription polymerase chain reaction, qRT–PCR）技术，并评估适用于最优高通量数据分析的实验方案。本研究通过RNA测序分析了HMGB1野生型（Wild Type, WT）或敲除型（Knock Out, KO）的iSLK BAC16细胞的转录组，这些细胞分别经强力霉素（doxycycline）与丁酸钠（sodium butyrate）诱导或未诱导卡波西肉瘤相关疱疹病毒（Kaposi's sarcoma-associated herpesvirus, KSHV）的裂解性复制。