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Series GSE168367 Query DataSets for GSE168367
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 [CUT&Tag]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Defective silencing of retroviral elements has been linked to inflamm-aging, cancer and auto-immune diseases. However, the underlying mechanisms are only partially understood. Here, we implicate the histone H3.3 chaperone Daxx, a retrotransposable element (RTE) repressor inactivated in myeloid leukemia and other neoplasms, in protection from inflammatory disease. Loss of Daxx has profound effects on chromatin landscapes and histone marks of hematopoietic progenitors, leading to engagement of a Pu.1-dependent transcriptional program for myelopoiesis at the expense of B-cell differentiation. This causes neutrophilia and inflammation, predisposing mice to development of an autoinflammatory skin disease. These molecular and phenotypic perturbations are in part reverted in animals lacking both Pu.1 and Daxx. However, hematopoietic progenitors in these mice also show unique chromatin and transcriptome alterations, suggesting synergistic interaction between the two pathways. Overall, our findings implicate RTE silencing in hematopoiesis and reveal a potential functional relationship between the H3.3 loading machinery and the pioneer transcription factor Pu.1.
Overall design Examination of gene expression profiles, chromatin accessibility and epigenetic changes in hematopoietic stem/progenitor cells comparing wild-type and Daxx knock-out cells.
Contributor(s) Gerber JP, Russ J, Chandrasekar V, Offermann N, Lee H, Spear S, Guzzi N, Maida S, Pattabiraman S, Zhang R, Kayvanjoo AH, Datta P, Kasturiarachchi J, Sposito T, Izotova N, Händler K, Adams PD, Marafioti T, Enver T, Wenzel J, Beyer M, Mass E, Bellodi C, Schultze JL, Capasso M, Nimmo R, Salomoni P
Citation(s) 34876685
Submission date Mar 05, 2021
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)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (62)
GSM5137363 Daxx +/+ 3wpi H3.3 1
GSM5137364 Daxx +/+ 3wpi Pu.1 1
GSM5137365 Daxx +/+ 3wpi H3K9me3 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 PRJNA707037
SRA SRP309493

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

Supplementary file Size Download File type/resource 392.4 Mb (ftp)(http) BW 252.2 Mb (ftp)(http) BW 415.7 Mb (ftp)(http) BW 172.9 Mb (ftp)(http) BW 143.4 Mb (ftp)(http) BW 119.6 Mb (ftp)(http) BW 273.5 Mb (ftp)(http) BW 495.8 Mb (ftp)(http) BW 325.2 Mb (ftp)(http) BW 160.2 Mb (ftp)(http) BW 338.7 Mb (ftp)(http) BW 84.6 Mb (ftp)(http) BW 95.1 Mb (ftp)(http) BW 423.5 Mb (ftp)(http) BW 140.8 Mb (ftp)(http) BW 104.7 Mb (ftp)(http) BW 179.7 Mb (ftp)(http) BW 331.5 Mb (ftp)(http) BW 436.6 Mb (ftp)(http) BW 264.3 Mb (ftp)(http) BW 178.6 Mb (ftp)(http) BW 437.4 Mb (ftp)(http) BW 107.1 Mb (ftp)(http) BW 132.7 Mb (ftp)(http) BW 533.5 Mb (ftp)(http) BW 138.5 Mb (ftp)(http) BW 116.3 Mb (ftp)(http) BW
GSE168367_H3.3_DaxxFF_24wpi_noXY_diffsite.txt.gz 16.9 Mb (ftp)(http) TXT
GSE168367_H3.3_DaxxFF_3wpi_diffsite.txt.gz 9.8 Mb (ftp)(http) TXT
GSE168367_H3K27ac_DaxxFF_24wpi_noXY_diffsite.txt.gz 13.4 Mb (ftp)(http) TXT
GSE168367_H3K27ac_DaxxFF_diffsite.txt.gz 6.0 Mb (ftp)(http) TXT
GSE168367_H3K27me3_DaxxFFPu1FFvsDaxxFF_8wpi_diffsite.txt.gz 4.2 Mb (ftp)(http) TXT
GSE168367_H3K27me3_DaxxFFPu1FFvsDaxxWtWt_8wpi_diffsite.txt.gz 4.4 Mb (ftp)(http) TXT
GSE168367_H3K27me3_DaxxFF_24wpi_noXY_diffsite.txt.gz 9.3 Mb (ftp)(http) TXT
GSE168367_H3K27me3_DaxxFFvsDaxxWtWt_8wpi_diffsite.txt.gz 16.7 Mb (ftp)(http) TXT
GSE168367_H3K9me3_DaxxFFPu1FFvsDaxxFF_8wpi_diffsite.txt.gz 2.9 Mb (ftp)(http) TXT
GSE168367_H3K9me3_DaxxFFPu1FFvsDaxxWtWt_8wpi_diffsite.txt.gz 3.3 Mb (ftp)(http) TXT
GSE168367_H3K9me3_DaxxFF_24wpi_noXY_diffsite.txt.gz 10.2 Mb (ftp)(http) TXT
GSE168367_H3K9me3_DaxxFF_8wpi_diffsite.txt.gz 4.8 Mb (ftp)(http) TXT
GSE168367_H3K9me3_DaxxFF_diffsite.txt.gz 3.6 Mb (ftp)(http) TXT
GSE168367_Pu1_DaxxFF_24wpi_noXY_diffsite.txt.gz 17.0 Mb (ftp)(http) TXT
GSE168367_Pu1_DaxxFF_3wpi_diffsite.txt.gz 10.9 Mb (ftp)(http) TXT
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