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. 2022 Mar 3;54(3):306–317. doi: 10.1038/s41588-022-01014-1

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© The Author(s) 2022

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. 10 — (A,B) Scatter plots showing the burst sizes against the burst frequencies for the C57 (A) and CAST (B) genomes. Genes are colored according to the width of a 95% confidence interval (CI_high/CI_low). (C-E) Quality control for Smart-seq3 libraries from siRNA treated primary fibroblast cells (red lines represent quality control cutoffs); scatter plot showing the number of unique UMI reads against the number of read counts mapped to exons (C), scatter plot showing the distribution of allele sensitive read counts for non-imprinted autosomal genes (D), and scatter plot showing the distribution of allele sensitive read counts for non-escapee genes on the X-chromosome (E). (F) Barplot representing the number of cells passing quality control for individual siRNA treatments. (G-L) Density plots representing mean expression (UMIs) of modulated genes upon siRNA induced suppression of lncRNAs for Gsta4 (G), Txnrd1 (H), Sox9 (I), Fam78b (J), Cdkn2a (K) and Tmc7 (L). (M) Density plot representing expression of the lncRNA Gm53 upon siRNA induced knockdown. G-M; mean expression fold changes are quantified and highlighted in green and blue. Vertical dashed lines represent mean expression levels.