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. 2023 Jan 23;25(3):481–492. doi: 10.1038/s41556-022-01075-8

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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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Extended Data Fig. 8 — a-b, k-means clustering of genes within 200Kb of peaks in ATAC clusters as defined in Fig. 4a (VFGp3^OPEN, VFGp6^OPEN, VFGp3^CLOSE, and VFGp3^CLOSE). Z-scored log10 normalized gene expression of ADE, VFGp6, and PE samples (a); and of ADE, VFGp3, and VFGp6 samples (b) were plotted for VFG^OPEN and VFG^CLOSE clustered genes respectively (n = 10). c, De novo motif search was made using Homer findMotifsGenome and searched within ±200 bp of peak center for genes mapped to the vicinity of VFGp3^OPEN (k-means clusters 1 and 9, n = 1330), VFGp6^OPEN (k-means clusters 5 and 6, n = 376), VFGp3^CLOSE (k-means clusters 1 and 8, n = 1006), and VFGp6^CLOSE (k-means clusters 1 and 2, n = 524).