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Series GSE119306 Query DataSets for GSE119306
Status Public on Aug 31, 2021
Title Aberrant chromatin landscape upon loss of the H3.3 chaperone Daxx leads to Pu.1-mediated neutrophilia and inflammation [ATAC-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The lymphoid and myeloid lineages are in equilibrium during steady-state hematopoiesis. Tilting hematopoiesis towards innate immunity has been linked to inflammation and may predispose to myeloproliferative disease. Although epigenetic players have been implicated in the control of hematopoiesis and pathogenesis of blood neoplasms, the role of chromatin-based mechanisms in regulating the lymphoid/myeloid balance remains only partially understood. Here, we show that loss of the H3.3 chaperone Daxx causes myeloid skewing, neutrophilia and pyoderma gangrenosum-like lesions, a human skin disease of unknown etiology. Daxx deficiency leads to chromatin opening at intergenic regions, including TERRA target sites, deregulation of repeat elements and activation of anti-viral defense pathways. Finally, the other main H3.3 chaperone, Hira, is dispensable for normal hematopoiesis but supports expansion of Daxx-deficient neutrophils. These results define a role for Daxx in proper selection of lymphoid versus myeloid lineages, linked to control of repeat elements and anti-inflammatory responses.
Overall design Examination of gene expression profiles and chromatin accessibility in hematopoietic stem/progenitor cells comparing wild-type and Daxx knock-out cells.
Contributor(s) Hofmann J, Russ J, Spear S, Guzzi N, Chandrasekar V, Izotova N, Maida S, Händler K, Adams P, Marafioti T, Enver T, Wenzel J, Beyer M, Bellodi C, Schultze J, Capasso M, Nimmo R, Salomoni P
Citation(s) 34876685
Submission date Aug 31, 2018
Last update date Jan 11, 2022
Contact name Paolo Salomoni
Organization name DZNE e.V.
Street address Sigmund-Freud-Str. 27
City Bonn
ZIP/Postal code 53127
Country Germany
Platforms (2)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (24)
GSM3369647 Daxx +/+ LT.HSC 1
GSM3369648 Daxx +/+ LT.HSC 2
GSM3369649 Daxx F/F LT.HSC 1
This SubSeries is part of SuperSeries:
GSE119309 Aberrant chromatin landscape upon loss of the H3.3 chaperone Daxx leads to Pu.1-mediated neutrophilia and inflammation
BioProject PRJNA488721
SRA SRP159236

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE119306_180606_CMPff_EncodePeaks_m.bed.gz 414.0 Kb (ftp)(http) BED
GSE119306_180606_CMPwt_EncodePeaks_m.bed.gz 536.9 Kb (ftp)(http) BED
GSE119306_180606_GMPff_EncodePeaks_m.bed.gz 404.8 Kb (ftp)(http) BED
GSE119306_180606_GMPwt_EncodePeaks_m.bed.gz 528.7 Kb (ftp)(http) BED
GSE119306_180606_LTHSCff_EncodePeaks_m.bed.gz 578.5 Kb (ftp)(http) BED
GSE119306_180606_LTHSCwt_EncodePeaks_m.bed.gz 538.0 Kb (ftp)(http) BED
GSE119306_DaxxFF.idr.conservative_peak.narrowPeak.gz 2.0 Mb (ftp)(http) NARROWPEAK
GSE119306_DaxxWtWt.idr.conservative_peak.narrowPeak.gz 1.6 Mb (ftp)(http) NARROWPEAK
GSE119306_KLS_ATACseq_DaxxFFPu1FFvsDaxxWtWt_diffsite.txt.gz 3.4 Mb (ftp)(http) TXT
GSE119306_KLS_ATACseq_DaxxFF_diffsite.txt.gz 1.1 Mb (ftp)(http) TXT
GSE119306_KLS_DKO.idr.conservative_peak.narrowPeak.gz 921.2 Kb (ftp)(http) NARROWPEAK
GSE119306_KLS_DaxxFF.idr.conservative_peak.narrowPeak.gz 1.8 Mb (ftp)(http) NARROWPEAK
GSE119306_KLS_Wildtype.idr.conservative_peak.narrowPeak.gz 1.3 Mb (ftp)(http) NARROWPEAK
GSE119306_LTHSC_ATACseq_3dpi_DaxxFFvsDaxxWtWt_diffsite.txt.gz 824.5 Kb (ftp)(http) TXT
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