Supporting data for 'Functional characterization of Epstein-Barr virus encoded RNA 2 in the pathogenesis of nasopharyngeal carcinoma'

A. Filename: chapter 3 SHAPE-MaP      
      Short description:        

    This file includes the analysing code by shapemapper2 and the resulting structures of the SHAPE MaP experiments. This is the supporting data for chapter 3 in my thesis.

   B. Filename: chapter 4 RAP-MS       
      Short description:        
   This file contains the raw data of mass spectrometry done in CPOS and the excel file for the proteins pulled down by EBER1, EBER2 probes or negative control. The MS/MS reads are the number of    reads for each proteins in each samples. The experiment was done in triplicates.

   C. Filename: chapter 5 RNA-seq     
      Short description:

     These are the RNA seq differential genes and transcripts excel files for M81 EBER2 or B95-8 EBER2 overexpression in C17 NPC cell lines. This experiment was done in triplicates. The fold change reflects the expression levels of each gene compared to negative control, and the lower FDR, the more significant the differential expression is.

   D. Filename:  Dataset_RT-qPCR      
      Short description:

      All RT-qPCR raw data generated from Roche LightCycler 480. The raw data was further labeled and analyzed in excel. The enrichment of each RNA in RIP-qPCR results in Chapter 4  and the validation of RNAseq and other funcitonal tests in chapter5 were shown in this file.
   E. Filename:  Dataset_Western      
      Short description:

    All the  photos of ECL developed membrane for western blotting generated by AI680. The photos were then further labeled and analyzed in ImageJ.  The levels of the input as well as IP of proteins or truncated proteins for each RIP-qPCR experiments for chapter 4 and the cell fractionatio assay for chapter 5 were shown by western blotting.

{'A': {'Filename': '文件名：第三章 SHAPE-MaP', 'Short description': '本文件包含由 shapemapper2 生成的分析代码以及 SHAPE MaP 实验所得到的结果结构。这是本人论文第三章的支持性数据。', 'Content': '本文件收录了由 shapemapper2 生成的分析代码以及 SHAPE MaP 实验所得的结构结果。此乃本论文第三章之辅助数据也。'}, 'B': {'Filename': '文件名：第四章 RAP-MS', 'Short description': '本文件包含在 CPOS 进行的质谱分析的原数据，以及由 EBER1、EBER2 探针或阴性对照所捕获的蛋白质的 Excel 文件。MS/MS 读取数据为每个样本中每种蛋白质的读取数。实验以三重重复进行。', 'Content': '此文件集纳了于 CPOS 进行之质谱分析之原始数据，及由 EBER1、EBER2 探针或阴性对照捕获之蛋白质之 Excel 文件。MS/MS 读取数据，乃各样本中各类蛋白质之读取次数。实验三次重复进行，以臻严谨。'}, 'C': {'Filename': '文件名：第五章 RNA-seq', 'Short description': '此为 M81 EBER2 或 B95-8 EBER2 在 C17 NPC 细胞系中过表达所导致的 RNA 测序差异基因和转录本 Excel 文件。实验以三重重复进行。倍数变化反映各基因相对于阴性对照的表达水平，FDR 越低，差异表达越显著。', 'Content': '兹提供 RNA 测序差异基因及转录本 Excel 文件，以记录 M81 EBER2 或 B95-8 EBER2 在 C17 NPC 细胞系中过表达之情形。实验重复三次以确保可靠性。倍数变化指标显现各基因与阴性对照之表达水平差异，FDR 值越低，差异表达之显著性越高。'}, 'D': {'Filename': '文件名：Dataset_RT-qPCR', 'Short description': '所有由 Roche LightCycler 480 生成的 RT-qPCR 原始数据。原始数据经进一步标记和分析后存入 Excel 文件。本文件展示了第四章中 RIP-qPCR 结果中各 RNA 的富集情况，以及第五章中 RNA 测序及其他功能测试的验证。', 'Content': '收录 Roche LightCycler 480 生成的 RT-qPCR 原始数据，并经标记及分析后存入 Excel 文件。本文件展示了第四章中 RIP-qPCR 实验中各 RNA 之富集状况，以及第五章中 RNA 测序及其他功能测试之验证结果。'}, 'E': {'Filename': '文件名：Dataset_Western', 'Short description': '由 AI680 生成的 ECL 显色 western blotting 膜片照片。照片随后在 ImageJ 中进行标记和分析。本文件展示了第四章中每个 RIP-qPCR 实验中蛋白质或截断蛋白质的输入及免疫沉淀水平，以及第五章中细胞组分分析的 western blotting 结果。', 'Content': '收录 AI680 生成之 ECL 显色 western blotting 膜片照片，继而在 ImageJ 中进行标记与分析。本文件展示了第四章中各 RIP-qPCR 实验中蛋白质或截断蛋白质之输入及免疫沉淀水平，并呈现第五章细胞组分分析之 western blotting 结果。'}}