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Series GSE132151 Query DataSets for GSE132151
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
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.
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.
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
Submission date Jun 04, 2019
Last update date Sep 09, 2019
Contact name Robert Welner
Organization name BIDMC
Department Medicine - Hem/Onc
Lab Dr. Tenen
Street address 3 Blackfan Circle, CLS428
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (2)
GSM3851662 Stroma1
GSM3851663 Stroma2
BioProject PRJNA546231
SRA SRP200493

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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
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