Additional file 3: Supplemental Datasets. of Iron homeostasis in Arabidopsis thaliana: transcriptomic analyses reveal novel FIT-regulated genes, iron deficiency marker genes and functional gene networks

Dataset 1. Fold-changes of gene expression in roots of 6 week-old Arabidopsis plants. The fold-changes are log2 values. In the column header the upper line/condition is compared to the lower line/condition. Significant up-regulation is indicated by red background color. Significant down-regulation is indicated by green background-color. The residual insignificant and below-threshold values are masked by black background color. Dataset 2. Fold-changes of gene expression in 6 day-old Arabidopsis whole seedlings. The fold-changes are log2 values. In the column header the upper line/condition is compared to the lower line/condition. Significant up-regulation is indicated by red background color. Significant down-regulation is indicated by green background-color. The residual insignificant and below-threshold values are masked by black background color. Dataset 3. Juxtaposition of the fold-changes of gene expression in roots of 6-day-old Arabidopsis seedlings and 6-week-old Arabidopsis roots. The fold-changes are log2 values. In the column header the upper line/condition is compared to the lower line/condition. Significant up-regulation is indicated by red background color. Significant down-regulation is indicated by green background-color. The residual insignificant and below-threshold values are masked by black background color. Dataset 4. Juxtaposition of the fold-changes of gene expression in roots of 6-day-old Arabidopsis seedlings and 6-week-old Arabidopsis roots. The fold-changes are log2 values. In the column header the upper line/condition is compared to the lower line/condition. Significant up-regulation is indicated by red background color. Significant down-regulation is indicated by green background-color. The residual insignificant and below-threshold values are masked by black background color. The genes were filtered so that only genes are present in this table which were found regulated at least in one comparison in whole seedlings and in one comparison in roots. Dataset 5: Genes that are regulated in an iron-dependent manner across 10 studies with a total of 14 comparisons. Up-regulated genes are represented by the value 1 and a red background color. Down-regulated genes are represented by the value -1 and a green background color. Genes with no significant regulation or with regulation below the threshold of the respective study are represented by the value 0 and black background color. The column titled ‘ABS’ shows the number of comparisons in which the gene was found regulated. The column titled ‘SUM’ shows the overall sum of the given values (-1 for down-regulation, +1 for up-regulation, ±0 for no regulation) of all comparisons. The genes with the highest sum are regarded as most stably up-regulated upon iron deficiency. The genes with the lowest sum are regarded as most stably down-regulated upon iron deficiency. The column titled ‘RAT’ contains the result of division of the absolute value of ‘SUM’ by ‘ABS’ and is supposed to provide a threshold for the Supplemental Dataset 6, along with ‘SUM’. (XLSX 4180 kb)

数据集1：6周龄拟南芥（Arabidopsis）根部的基因表达倍数变化。该倍数变化为以2为底的对数转换值。列标题中，上方的处理/条件与下方的处理/条件进行对照比较。显著上调以红色背景标注，显著下调以绿色背景标注，剩余无显著性且低于阈值的数值以黑色背景掩盖。
数据集2：6日龄拟南芥整株幼苗的基因表达倍数变化。该倍数变化为以2为底的对数转换值。列标题中，上方的处理/条件与下方的处理/条件进行对照比较。显著上调以红色背景标注，显著下调以绿色背景标注，剩余无显著性且低于阈值的数值以黑色背景掩盖。
数据集3：6日龄拟南芥整株幼苗根部与6周龄拟南芥根部的基因表达倍数变化并列展示。该倍数变化为以2为底的对数转换值。列标题中，上方的处理/条件与下方的处理/条件进行对照比较。显著上调以红色背景标注，显著下调以绿色背景标注，剩余无显著性且低于阈值的数值以黑色背景掩盖。
数据集4：6日龄拟南芥整株幼苗根部与6周龄拟南芥根部的基因表达倍数变化并列展示。该倍数变化为以2为底的对数转换值。列标题中，上方的处理/条件与下方的处理/条件进行对照比较。显著上调以红色背景标注，显著下调以绿色背景标注，剩余无显著性且低于阈值的数值以黑色背景掩盖。本表格仅保留至少在1组整株幼苗比较及1组根部比较中被检测到差异表达的基因。
数据集5：在10项研究共14组比较中呈现铁依赖性调控模式的基因。上调基因以数值1及红色背景标注，下调基因以数值-1及绿色背景标注。无显著调控或调控水平低于对应研究阈值的基因以数值0及黑色背景标注。名为"ABS"的列展示该基因被检测到调控的比较组总数；名为"SUM"的列展示所有比较组的数值总和（下调记为-1、上调记为+1、无调控记为±0）。总和最高的基因被视为缺铁条件下最稳定的上调基因，总和最低的基因被视为缺铁条件下最稳定的下调基因。名为"RAT"的列为"SUM"的绝对值与"ABS"的比值，可与"SUM"一同作为补充数据集6的筛选阈值。（XLSX格式，文件大小4180千字节）