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)