Science Immunology

Supplementary Materials

Supplementary Material for:

Maintenance of macrophage transcriptional programs and intestinal homeostasis by epigenetic reader SP140

Stuti Mehta, D. Alexander Cronkite, Megha Basavappa, Tahnee L. Saunders, Fatemeh Adiliaghdam, Hajera Amatullah, Sara A. Morrison, Jose D. Pagan, Robert M. Anthony, Pierre Tonnerre, Georg M. Lauer, James C. Lee, Sreehaas Digumarthi, Lorena Pantano, Shannan J. Ho Sui, Fei Ji, Ruslan Sadreyev, Chan Zhou, Alan C. Mullen, Vinod Kumar, Yang Li, Cisca Wijmenga, Ramnik J. Xavier, Terry K. Means, Kate L. Jeffrey*

*Corresponding author. Email: kjeffrey{at}mgh.harvard.edu

Published 3 March 2017, Sci. Immunol. 2, eaag3160 (2017)
DOI: 10.1126/sciimmunol.aag3160

This PDF file includes:

  • Materials and Methods
  • Fig. S1. Expression of Sp140 in murine immune subsets.
  • Fig. S2. Sp140 is essential for mouse macrophage transcriptional programs.
  • Fig. S3. SP140 preferentially interacts with chromatin at the TSS of genes bearing repressive H3K27me3 in human M(IFN-γ+LPS 4h) macrophages.
  • Fig. S4. Overlap of SP140 peaks with methylated or acetylated histones at promoters or enhancers in human macrophages.
  • Fig. S5. SP140 abundance does not correlate with H3K27ac enrichment at enhancer regions in human M(IFN-γ) or M(IFN-γ+LPS 4h) macrophages.
  • Fig. S6. SP140 abundance positively correlates with H3K27me3.
  • Fig. S7. Regions of high SP140 enrichment show lower chromatin accessibility.
  • Fig. S8. Altered splicing of SP140 in whole blood and influenza or IFN-β–stimulated dendritic cells carrying CD-associated SP140 SNPs.
  • Fig. S9. Reduced and truncated SP140 protein in EBV B cells bearing CDassociated SP140 SNPs.
  • Fig. S10. Relative proportions of leukocyte subsets and differential gene expression in PBMCs from HCs or CD+ SP140 SNP-/- or CD+ SP140 SNP+/+ patients.
  • Fig. S11. Similar immune cell composition in intestinal biopsies from anti-TNF responder and nonresponder CD and ulcerative colitis patients.
  • Fig. S12. Full images of Western blots.
  • Table S1. Genes down-regulated upon Sp140 knockdown in LPS-stimulated bone marrow–derived macrophages.
  • Table S2. Genes differentially expressed upon siRNA-mediated knockdown of SP140 in human macrophages.
  • Table S3. Differentially expressed genes between CD patient PBMCs carrying or not carrying SP140 SNPs.
  • References (65–71)

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Other Supplementary Material for this manuscript includes the following:

  • Table S4 (Microsoft Excel format). Excel file containing source data for Figs. 1, 3, 4, 5, 6, 7, and 8.

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