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. 2023 Dec 20;625(7994):401–409. doi: 10.1038/s41586-023-06872-1

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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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 9 — a. Smoothed scatterplot showing correlation between ATAC-seq signal and RT values in 2-cell stage embryos (left) and in α-amanitin treated 2-cell stage embryos (right). Rs indicates Spearman’s R. b. Pairwise Spearman´s correlation coefficients (R) between RT and ATAC-seq signal in untreated and in α-amanitin treated 2-cell stage embryos. Error bars indicate the 95% bootstrap confidence interval. Dot represents the mean of 1000 bootstrapped values. c. Smoothed scatterplot depicting the difference of RT values (ΔRT) between α-amanitin treated and untreated 2-cell embryos against ATAC-seq signal in control 2-cell stage embryos. d. Difference of RT values (ΔRT) at genomic bins that significantly lose accessibility (down), gain accessibility (up) or remain unchanged (non-significant) upon α-amanitin treatment in 2-cell stage embryos. Box plots show median and the interquartile range (IQR), whiskers depict the smallest and largest values within 1.5 ×IQR. e. Size of RT peaks, TTRs and RT troughs in control versus α-amanitin or DRB treated 2-cell embryos. f. A + T content in RT peaks, TTRs, and RT troughs in 2-cell and α-amanitin treated 2-cell embryos. Box plots show median and the interquartile range (IQR), whiskers depict the smallest and largest values within 1.5 ×IQR. g. Fraction of RT peaks containing genes expressed at the 2-cell stage relative to all genes in RT peaks specific to 2-cell stage embryos upon α-amanitin treatment (de novo), in RT peaks specific to control 2-cell stage embryos (lost) and RT peaks present in both 2-cell control and α -amanitin treated embryos.