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Series GSE130774 Query DataSets for GSE130774
Status Public on May 07, 2019
Title Genome Wide Chromatin Mapping of Aiolos accessability and H3K27ac histone modifications in transfected MNK3 cells
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Innate lymphoid cells (ILCs) are tissue-resident lymphocytes subdivided into ILC1s, ILC2s and ILC3s based on core regulatory programs and signature cytokines secreted. ILCs exhibit functional plasticity: for instance, human IL-22-producing ILC3s convert into IFN-γ-producing ILC1-like in vitro. Whether this conversion occurs in vivo is unclear. Using flow cytometry, mass cytometry and scRNAseq, here we found that ILC3s and ILC1s occupy opposite ends of a spectrum including discrete subsets in human tonsils. RNA velocity suggested strong directionality toward ILC1s for one ILC3-ILC1 intermediate cluster. Clonal analysis revealed graded ability of ILC3-ILC1 subsets to convert into ILC1-like cells. When examined in humanized mice, ILC3 acquisition of ILC1 features showed tissue-dependency. In chromatin studies, Aiolos emerged as a nuclear factor that cooperates with Tbet to repress evolutionarily conserved regulatory elements active in ILC3s. The human intestine also exhibited an ILC3–ILC1 transitional population. We conclude that conversion of ILC3s to ILC1-like occurs in vivo in human tissues, and that tissue factors and Aiolos are crucial for this process.
Overall design Examination of H3K27Ac and IKZF3 binding sites in MNK3 transfected with control, pTbet, or pTbet + pIKZF3 expression vectors
Contributor(s) Collins P, Cella M, Peng V, Colonna M
Citation(s) 31209406
Submission date May 06, 2019
Last update date Aug 06, 2019
Contact name Marco Colonna
Organization name Washington University in St. Louis
Street address 660 S. Euclid Ave.
City St. Louis
State/province MO
ZIP/Postal code 63110
Country USA
Platforms (1)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (7)
GSM3753412 MNK3-Control_H3K27ac
GSM3753413 MNK3-Tbet_H3K27ac
GSM3753414 MNK3-Tbet-IKZF3_H3K27ac
This SubSeries is part of SuperSeries:
GSE130775 Expression profiling of ILC transitional populations and Aiolos accessability and H3K27ac histone modifications in transfected MNK3 cells
BioProject PRJNA541316
SRA SRP195619

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Supplementary file Size Download File type/resource
GSE130774_RAW.tar 389.8 Mb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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