Extended Data Fig. 8: Deletion of 3′ CBEs in i3CBE cells has little effect on the Sα CSR and Sα inversional joining.
From: Fundamental roles of chromatin loop extrusion in antibody class switching
a, Representative FACS analyses for IgH class switching from IgM to IgA for CH12F3NCΔ, i3CBEs and i3CBEs 3′ CBEsΔ cells stimulated with anti-CD40–IL-4–TGFβ for 72 h. Bar graph on right shows FACS data from six biologically independent repeats plotted as mean ± s.d. P values were calculated via an unpaired two-tailed t-test. b, CSR-HTGTS-seq of three repeats that use 5′ Sμ bait for analyses of anti-CD40–IL-4–TGFβ-stimulated CH12F3NCΔ, i3CBEs and i3CBEs-3′ CBEsΔ cells. Junctions are plotted at 200-bp bin size. Blue lines indicate deletional joining and red lines indicate inversional joining. c, Schematic of Igh CH locus from iEμ to 33 kb downstream of 3′ CBEs. Top, magnified view illustrates 3′ CBEs deletion in i3CBEs lines to generate i3CBE 3′ CBEΔ lines. d, Three repeats of 3C-HTGTS profiles of anti-CD40–IL-4–TGFβ-stimulated i3CBE AID−/− and i3CBE 3′ CBEΔ-AID−/− cells using the CBE insertion locale as bait (blue asterisks).
