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. 2024 May 21;25:126. doi: 10.1186/s13059-024-03278-8

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© The Author(s) 2024

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/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 2 — Correlation between DNA replication and transcription progressions. A Average metagene profiles of BrdU-Seq (blue) and Chr-RNA-Seq (red) levels from the Early S timepoint at BrdU peaks called in Early S ± 1 kb. B Heatmap analysis of BrdU-Seq (blue) and Chr-RNA Seq (red) signal across BrdU peaks called in Early S ± 2.5 kb, depending on the reciprocal directionality between DNA replication leading fork and transcription in codirectional, head on or undetermined, ranked by BrdU-Seq signal intensity. C BrdU-Seq (blue) and Chr-RNA-Seq (red) profiles across specific BrdU peaks, indicated by the light blue bar in the listed genes, with indicated the width of the region showed. D Average metagene profile of Chr-RNA-Seq levels and heatmap analysis from the G1/S timepoint across all the BrdU peaks called in Early S ± 1 kb, separated by directionality; Undet = undetermined. E As B but for BrdU peaks called in Early/Mid S and Mid S