Fig. 4: ICA analysis of the recovery period following heavy metal inductions.
From: High-resolution temporal profiling of E. coli transcriptional response
a Diagram illustrating the steps involved in the analysis pipeline. The ICA was applied to the data collected from the end of the induction window. We considered 20 time points at a distance of 40 min each. b Matrix decomposition after applycing ICA. Overall, the ICA analysis identifies 33 iModulons, a selection of which is shown in panel C. c Activity plots and related significant genes for a selection of iModulons associated to the post-induction response. The x-axis represents five time points spaced 40 min apart for each of the heavy-metal shown. For illustration purposes only the first time point of each metal is labeled. The y-axis is unitless as it represents the log 2 of the fold change of the normalized fluorescence data. Green dots indicate promoters that drive genes related to transcription/translation/synthesis functions. Red dots indicate promoters related to stress/damage responses. Grey dots indicate promoters in neither of those categories. d Comparison of number of promoters grouped by function during and after heavy metal induction.
