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Status |
Public on May 03, 2017 |
Title |
Immune-restricted epigenetic reader SP140 maintains macrophage identity and activation states critical to intestinal homeostasis [ATAC-Seq] |
Organism |
Homo sapiens |
Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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Summary |
Introduction: SP140 is a bromodomain/plant homeo domain (PHD)-containing reader with immune-restricted expression, and single nucleotide polymorphisms (SNPs) within SP140 associate with Crohn’s disease (CD). However, the function of SP140 and the consequences of disease-associated SP140 SNPs have remained unknown. Results: Individuals carrying CD-associated SNPs within SP140 had defective SP140 mRNA splicing, diminished SP140 protein, and severely suppressed innate immune signatures that stratified them from other CD patients. Conclusion: SP140 is a critical orchestrator of macrophage identity, and a loss of SP140 due to genetic variation contributes to a molecularly defined subset of CD characterized by suppressed innate immunity.
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Overall design |
ATAC-seq in human macrophages stimulated with IFNg for 24h, and LPS stimulation for 4 hours: siRNA mediated knockdown of SP140 versus controls.
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Contributor(s) |
Mehta S, Pantano L, Sui SH, Jeffrey KL |
Citation |
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 (2017). Maintenance of macrophage transcriptional programs and intestinal homeostasis by epigenetic reader SP140. Science Immunology. March 3 Vol. 2, Issue 9, doi: 10.1126/sciimmunol.aag3160
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Submission date |
Oct 25, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Kate L Jeffrey |
E-mail(s) |
KJeffrey@mgh.harvard.edu
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Phone |
6176435887
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Organization name |
Massachusetts General Hospital, Harvard Medical School
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Department |
Medicine
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Lab |
Jeffrey
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Street address |
50 Blossom St, Thier 340
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City |
Boston |
State/province |
Massachusetts |
ZIP/Postal code |
02114 |
Country |
USA |
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Platforms (1) |
GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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Samples (4)
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This SubSeries is part of SuperSeries: |
GSE89876 |
Immune-restricted epigenetic reader SP140 maintains macrophage identity and activation states critical to intestinal homeostasis |
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Relations |
BioProject |
PRJNA350528 |
SRA |
SRP092059 |
Supplementary file |
Size |
Download |
File type/resource |
GSE89177_RAW.tar |
223.1 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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