Mapping multi-layered regulation in response to environmental stress

We have mapped transcript and protein concentrations in cervical cancer cells responding to treatment with tunicamycin over an eight hour time course. We complement this dataset with RNA footprints of ribosomes and non-ribosomal proteins to determine changes in translation and trans-factor binding. The goals of this study are to unveil the time dependent complexity of the signaling pathways at the level of transcription and translation during different stress conditions like stress of the endoplasmic reticulum and oxidative stress. Hela cells were subjected to ER stress or oxidative stress. Transcript, ribosome footprint and protein occupency profiles were generated for different time points (0, 1 , 4 , and 8 hours) by deep sequencing, in triplicate, using Illumina Illumina HiSeq 2500.

本研究针对经衣霉素（tunicamycin）处理的宫颈癌细胞，完成了8小时时间进程中的转录本与蛋白质浓度动态变化图谱绘制。本数据集补充了核糖体及非核糖体蛋白的RNA足迹（RNA footprint）数据，用于解析翻译过程与反式因子结合的动态变化。本研究的核心目标为揭示内质网应激（ER stress）、氧化应激等不同应激条件下，转录与翻译层面信号通路的时间依赖性复杂性。本实验以海拉（HeLa）细胞为研究模型，分别施加内质网应激与氧化应激处理。本研究通过Illumina HiSeq 2500平台开展三次生物学重复的深度测序，获取了0、1、4、8小时各时间点的转录本、核糖体足迹及蛋白结合谱（protein occupancy profile）数据。