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. 2023 Sep 16;14:5757. doi: 10.1038/s41467-023-41572-4

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 2 — a Promoter activity changes by TFKD. Dashed lines indicate cutoffs for statistically significant (q < 0.01) and substantial (>1.7-fold change) effects. Each dot represents a TF-promoter pair. Upregulation and downregulation by TFKD are shown in red and blue, respectively. A few known interacting TF-promoter pairs are labeled. b Histogram of the number of regulated promoters per TF. Inset in (b) shows histograms over a smaller range. c Histogram of the number of regulating TFs per promoter. d Fractions of constant promoters and variable promoters in each COG category. All COG categories of genes in an operon controlled by a promoter are assigned to the promoter. The dashed line indicates the average fraction of constant promoters over all COG categories. Statistical significance is determined by one-sided Fisher’s exact test. **P < 0.01. Source data are provided as a Source Data file.