Extended Data Fig. 6: ATAC-seq analysis of Tph cells, Tfh cells, and AHR inhibitor-treated cells.
From: Interferon subverts an AHR–JUN axis to promote CXCL13+ T cells in lupus
a,b, Example flow cytometry cell sorting of CD4+ T cell populations from RA synovial fluid (a) or tonsil (b) mononuclear cells. c, PCA plot of ATAC-seq data from CD4 T cell populations sorted from RA synovial fluid or from tonsil based on PD-1 expression level. d, PCA plot of ATAC-seq data from blood CD4+ T cells of healthy donors cultured with DMSO, AHR agonist TCDD or AHR inhibitor (AHRinh) CH-223191 in the presence of TGF-β. e, GSEA plots of annotated genes of DARs from synovial fluid Tph cells (top, p = 0.001) and tonsil Tfh cells (bottom, p = 0.001) in CD4+ T cells treated with AHRinh versus TCDD in presence of TGF-β for 1 week. f, Differentially accessible regions (red square) near the CXCL13 gene locus from ATAC-seq of each indicated cell type/culture condition. TCDD = AHR agonist; AHRinh = AHR inhibitor CH-223191.
