Additional file 2 of Is energy excess the initial trigger of carbon overflow metabolism? Transcriptional network response of carbon-limited Escherichia coli to transient carbon excess

Additional file 2. Transcriptome analysis. (Sheet 1) All time-dependent transcript data (4209 different transcripts in total, including regulation through single or multiple TF/SF combinations from those combinations identified later on as relevant). (Sheet 2) Time-dependent color-coded transcript data (heat maps) of genes responding differentially to the glucose pulse (1739 DEGs in total) sorted into respective clusters (14 clusters in total). (Sheet 3) Assignment to GO category “biological process” as well as the results of the functional enrichment analysis for determination of over-represented GO categories “biological process” (log10 nominal p-values of Fisher’s exact test). These data were used for the visualization of results presented in Fig. 2. (Sheet 4) 1739 DEG sorted into the 14 clusters together with their known control through all known TFs and SFs and the results of the functional enrichment analysis for determination of the most relevant TF/SF combinations (log10 nominal p-values of Fisher’s exact test). These data were used for the visualization of the results presented in Fig. 3. (Sheet 5) Selection of the most relevant TF/SF combinations. Time-dependent control of gene expression through single or multiple TF/SF combinations from those combinations identified as relevant. (Sheet 6) Fisher’s exact test (Sheet 7), corrected T-test and (Sheet 8) log10 T-test.