EV39+40 mRNA levels in Wild-type versus ddm1 Arabidopsis thaliana seedlings

Technical replicate of EV33+34. The two samples in this series are complementary hybridizations in a dye-swap analysis. Below is the normalized result of the paired dye swap samples EV39 and EV40. The ANOVA model of Kerr, Martin and Churchill (2000) was used to analyze the data from the dye-swap experiments, with terms included to account for gene, dye-by-gene, treatment-by-gene, and random error terms. To account for the number of hypothesis tests being made, and thus provide some level of error rate control, significance was assessed using a false discovery rate (FDR) controlling method. The step-up procedure of Benjamini and Hochberg (1995) was used to control the FDR below alpha = 0.01. For the purposes of this experiment, the hypotheses were assumed to be independent. Features found to be significantly enriched for DNA methylation after hypothesis-testing with a controlled error rate are flagged in the column. Standard errors and P-values are not available. Keywords: other

本数据集为EV33与EV34的技术重复（technical replicate）样本。该系列中的两个样本为染料互换（dye-swap）分析中的互补杂交样本。以下为配对染料互换样本EV39与EV40的标准化分析结果。本研究采用Kerr、Martin与Churchill（2000）提出的方差分析（Analysis of Variance, ANOVA）模型，对染料互换实验的数据进行分析，模型纳入了基因主效应、染料-基因交互效应、处理-基因交互效应以及随机误差项。鉴于本次实验开展了多重假设检验，为实现一定水平的错误率控制，本研究采用错误发现率（false discovery rate, FDR）校正方法进行显著性评估。本研究采用Benjamini与Hochberg（1995）提出的逐步上调法，将错误发现率（FDR）控制在α=0.01的水平以下。本实验假设所有待检验的假设相互独立。经误差率受控的假设检验后，被鉴定为显著富集DNA甲基化（DNA methylation）的特征项将在对应列中进行标记。本数据集未提供标准误与P值。关键词：其他