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. 2021 Aug 25;22:247. doi: 10.1186/s13059-021-02460-6

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© The Author(s) 2021

Open AccessThis 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. 8 — Joint-specific enhancers and chromatin interactions in the RBPJ locus might influence the joint-specific expression of RBPJ. a CAGE measurements of active enhancers (pink bars) and active promoters (light blue bars) in FLS from knees (n = 2), metacarpophalangeal (MCP) joints (n = 3), and shoulders (n = 2). Red box highlights enhancer used in MCP joints overlapping risk SNPs. Green box highlights main enhancer in shoulders. b Representative depiction of open chromatin as measured by ATAC-seq (black bars) in FLS from knees (n = 3), MCP joints (n = 2), and shoulders (n = 2) and representative depiction of ChromHMM regulatory regions in FLS from knees (n = 3), MCP joints (n = 2), and shoulders (n = 2). Green box highlights main enhancer in shoulders. c Chromatin interactions in FLS from knees (n = 2), MCP joints (n = 2), and shoulders (n = 2) as measured by CHiC. Green box highlights interaction of the shoulder enhancer with the risk locus