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| Status |
Public on Mar 01, 2020 |
| Title |
EBF-1 mutant bone marrow stroma confers long-term changes in hematopoietic stem cell potential |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Here, we investigate the role of Early B-cell factor 1 (EBF1) in MSCs to support hematopoiesis. Ebf1 deletion in Cxcl12-abundant reticular (CAR) cells and PDGFRα+Sca1+CD45-CD31-Lin- (PαS) cells in the bone marrow decreases the numbers of HSCs and myeloid cells. Single cell and bulk transcriptome analysis, combined with analysis of chromatin accessibility in EBF1-deficient MSCs revealed decreased expression of adhesion molecules and altered niche composition. In consequence, HSCs exposed to the EBF1-deficient niche, exhibit altered chromatin accessibility and impaired occupancy by myeloid regulators like AP-1, ETS and IRF.
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| Overall design |
Single cells from the bone marrow stroma as well as hematopoietic progenitors were sorted into 384-well plates and processed using a modified version of the CEL-Seq2 protocol (Hasimshony et al. 2016, Genome Biology, DOI: 10.1186/s13059-016-0938-8).
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| Contributor(s) |
Derecka M, Herman JS, Ramamoorthy S, Cauchy P, Lupar E, Grϋn D, Grosschedl R |
| Citation(s) |
32066955 |
| |
| Submission date |
Mar 22, 2019 |
| Last update date |
Jun 01, 2020 |
| Contact name |
Josip Stefan Herman |
| E-mail(s) |
herman@ie-freiburg.mpg.de
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| Phone |
00497615108725
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| Organization name |
Max Planck Institute of Immunobiology and Epigenetics
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| Department |
Quantitative Single Cell Biology
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| Lab |
Research Group Dominic Grün
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| Street address |
Stuebeweg 51
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| City |
Freiburg im Breisgau |
| ZIP/Postal code |
D-79108 |
| Country |
Germany |
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| Platforms (2) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
| GPL21493 |
Illumina HiSeq 3000 (Mus musculus) |
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| Samples (74)
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| Relations |
| BioProject |
PRJNA528662 |
| SRA |
SRP189280 |
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