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| Status |
Public on Jun 10, 2019 |
| Title |
Mapping distinct bone marrow niche populations and their differentiation paths |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The bone marrow microenvironment is composed of heterogeneous cell populations of non-hematopoietic cells with complex phenotypes and undefined trajectories of maturation. Among them, mesenchymal cells maintain the production of stromal, bone, fat and cartilage cells. Resolving these unique cellular subsets within the bone marrow remains challenging. Here, we used single-cell RNA-sequencing of non-hematopoietic bone marrow cells to define specific subpopulations. Furthermore, by combining computational prediction of the cell state hierarchy with known expression of key transcription factors, we mapped differentiation paths to the osteocyte, chondrocyte, and adipocyte lineages. Finally, we validated our findings using lineage-specific reporter strains and targeted knockdowns. Our analysis reveals differentiation hierarchies for maturing stromal cells, determines key transcription factors along these trajectories, and provides an understanding of the complexity of the bone marrow microenvironment.
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| Overall design |
Single-cell mRNA sequencing of stromal cells from mouse bone marrow. Sample Stroma1 represents 948 final filtered single cells. Sample Stroma2 represents 1899 final filtered single cells.
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| Contributor(s) |
Wolock SL, Krishnan I, Tenen DE, Matkins V, Camacho V, Patel S, Agarwal P, Bhatia R, Tenen DG, Klein AM, Welner RS |
| Citation(s) |
31291568 |
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| Submission date |
Jun 04, 2019 |
| Last update date |
Sep 09, 2019 |
| Contact name |
Robert Welner |
| Organization name |
BIDMC
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| Department |
Medicine - Hem/Onc
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| Lab |
Dr. Tenen
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| Street address |
3 Blackfan Circle, CLS428
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA546231 |
| SRA |
SRP200493 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE132151_bone_marrow_stroma.counts.tsv.gz |
13.3 Mb |
(ftp)(http) |
TSV |
| GSE132151_readme.txt |
1.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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