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. 2023 Aug 28;25(9):1359–1368. doi: 10.1038/s41556-023-01213-w

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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. 4 — a, Western blots of immunoprecipitated RBFOX2 and RBM15 from K562 cells and their interactions with YTHDC1 after RNase A/T1 treatment. b, Heatmap showing the binding intensity of METTL3 and METTL14 at YTHDC1-marked promoter regions. c, Barplot showing the proportion of YTHDC1 peaks overlapping with RBFOX2 or RMB15 in K562 cells. d, Immunofluorescence images (left panel) and intensity profile (right panel) of RBFOX2 protein (red) and YTHDC1 protein (yellow) showing their colocalization in K562 cells. Scale bar, 5μM. e, Average profile showing EZH2 level at their peak centers and the flanking 2.5 kb regions in YTHDC1 KD (siYTHDC1) versus control (siControl) K562 cells. EZH2 peaks were categorized into RBFOX2 bound (+) and unbound (−) subgroups. f, Average profile showing SUZ12 binding signals at their peak centers and the flanking 2.5 kb regions in RBFOX2 KD versus control K562 cells. SUZ12 peaks were categorized into RBFOX2 bound (+) and unbound (−) subgroups. g, Cumulative distribution of gene expression changes in siControl K562 cells upon RBFOX2 knockdown versus control, as well as in YTHDC1 knockdown K562 cells upon RBFOX2 knockdown versus control. The displayed genes (N = 1221) were those that were upregulated upon RBFOX2 knockdown in siControl K562 cells and bound by RBFOX2 at their promoter regions. h, Average profile of RBFOX2 (left panel) or RBM15 (right panel) at their respective peak centers and the flanking 2.5 kb regions in Control (siControl) versus YTHDC1 knockdown (siYTHDC1) K562 cells.

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