Identification of transchromosomal interactions in mammalian immune cells.

<p><b>(A)</b> Promoter capture HiC contact matrix in human CD4⁺ T cells confirming intrachromosomal interactions previously reported in the mouse Th2 locus control region <b>(B)</b> Heatmaps of chromosomes involved in detected transchromosomal interactions in mouse B cells, CD4⁺ and CD8⁺ T cells before and after exclusion of interactions associated with blacklisted regions. <b>(C)</b> Numbers of transchromosomal (upper panels) and intrachromosomal interactions (lower panels) common, or unique to murine B cells, CD4⁺ or CD8⁺ T cells before (white) and after (black) exclusion of interactions associated with blacklisted regions. <b>(D)</b> Circos plot of transchromosomal interactions in human B cells. Insets show examples of interactions associated with centromeres and telomeres. Centromeres are shown in red. <b>(E)</b> Association of mouse or human B cell specific transchromosomal (black histogram) and intrachromosomal interactions (grey line) with telomeres or centromeres. The x-axis is normalised to chromosome length starting from the telomere.</p

Reported transchromosomal interactions are not detected by <i>in situ</i> HiC.

<p><b>(A)</b> HiC contact matrix of regions on chromosome 10 and 11 in mouse CD4⁺ T cells previously reported to interact. Dotted squares show regions reported to interact. Colour intensity represents interaction with white being absence of detected interaction and black being intense interaction. Pixels are 20kB. <b>(B)</b> HiC contact matrix of regions on chromosome 1 and 11 in mouse CD4⁺ T cells previously reported to interact. Dotted square shows regions reported to interact. <b>(C)</b> Expanded HiC contact matrix of regions on chromosome 10 and 11 in mouse CD4⁺ T cells previously reported to interact. Dotted square encloses the region shown in Fig 2A. <b>(D)</b> Expanded HiC contact matrix of regions on chromosome 1 and 11 in mouse CD4⁺ T cells previously reported to interact. Dotted square encloses the region shown in Fig 2B. <b>(E)</b> HiC contact matrices showing the detected intrachromosomal interactions in mouse CD4⁺ T cells in the two regions on chromosome 10 and 11 reported to interact in <i>trans</i>. <b>(F)</b> HiC contact matrices showing the detected intrachromosomal interactions in mouse CD4⁺ T cells in the two regions on chromosome 1 and 11 reported to interact in <i>trans</i>. <b>(G)</b> HiC contact matrix of regions on chromosome 12 and 5 in human CD4⁺ T cells previously reported to interact in mouse CD4⁺ T cells. <b>(H)</b> HiC contact matrix of regions on chromosome 6 and 5 in human CD4⁺ T cells previously reported to interact in mouse CD4⁺ T cells. <b>(I)</b> Expanded HiC contact matrix of regions on chromosome 12 and 5 in human CD4⁺ T cells previously reported to interact. Dotted square encloses the region shown in Fig 2G. <b>(J)</b> Expanded HiC contact matrix of regions on chromosome 6 and 5 in human CD4⁺ T cells previously reported to interact in mouse CD4⁺ T cells. Dotted square encloses the region shown in Fig 2H. <b>(K)</b> HiC contact matrices showing the detected intrachromosomal interactions in human CD4⁺ T cells in the two regions on chromosome 12 and 5 reported to interact in <i>trans</i>. <b>(L)</b> HiC contact matrices showing the detected intrachromosomal interactions in human CD4⁺ T cells in the two regions on chromosome 6 and 5 reported to interact in <i>trans</i>.</p