Fig. 3.
An overview of DEG analysis in scale-down conditions with oscillating glucose. For the DEGs, a threshold of log2 fold change ±0.58 (corresponding to 1.5, meaning a 50% decrease/increase) and adjusted P-value <0.05 were applied. A) The number of DEGs between scale-down and control cultures of all tested strains. The highlighted portions of the bars (darker color) indicate genes that were only found among the up- or down-regulated DEGs of this strain and none of the other strains. B) Statistical regulon enrichment of the knocked-out regulators among the scale-down DEGs based on RegulonDB (threshold P < 0.05). The color scale indicates the significance of the statistical enrichment (negative log10 P-value shown; low number = less significant, high number = more significant). Regulators without significant enrichment are shown in gray. The size of the data points indicates the regulon recall. Recall = #DEGs in Regulon/# total genes in regulon.

An overview of DEG analysis in scale-down conditions with oscillating glucose. For the DEGs, a threshold of log2 fold change ±0.58 (corresponding to 1.5, meaning a 50% decrease/increase) and adjusted P-value <0.05 were applied. A) The number of DEGs between scale-down and control cultures of all tested strains. The highlighted portions of the bars (darker color) indicate genes that were only found among the up- or down-regulated DEGs of this strain and none of the other strains. B) Statistical regulon enrichment of the knocked-out regulators among the scale-down DEGs based on RegulonDB (threshold P < 0.05). The color scale indicates the significance of the statistical enrichment (negative log10 P-value shown; low number = less significant, high number = more significant). Regulators without significant enrichment are shown in gray. The size of the data points indicates the regulon recall. Recall = #DEGs in Regulon/# total genes in regulon.

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