GEO DataSets

(Submitter supplied) The phases of fracture healing have been well characterized. However, the exact source and genetic profile of the skeletal progenitors that participate in bone repair is somewhat unclear. Sox9 expression in skeletal elements precedes bone and cartilage formation and a Sox9+ cell type is retained in the adult periosteum. We hypothesized that Sox9+ periosteal cells are multipotent skeletal progenitors normally participating in fracture repair. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

4 Samples

Download data: TXT

(Submitter supplied) aSMA identifies osteochondroprogenitors in the periosteum involved in fracture callus formation. Cell surface marker expression, histological analysis, and lineage tracing data indicate that this is a heterogeneous population that contains a subset of self-renewing stem or progenitor cells. The goal of this study was to evaluate the heterogeneity of the initial cell population labeled using plate-based single cell RNAseq, and see if that changed following up to 13 weeks of chase.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16417

2 Samples

Download data: TSV, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL17021 GPL21103

18 Samples

Download data

(Submitter supplied) CTSK-mGFP positive cells from Day 6 old mouse femurs were sorted as single cells into 384 well plates pre-loaded with unique barcoded RT-primers. After sorting, cells were snap frozen on dry ice before being submitted to the New York Genome Center (NYGC) for cDNA synthesis and library preparation. The FACS profile for all the sored cells were collected to co-relate with gene expression.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

2 Samples

Download data: TXT

(Submitter supplied) FACS sorted 4 bulk cell population from mouse femur (P6) were subjected to RNA sequencing. The samples were periosteal stem cell (PSC), progenitor population type 1 (PP1), progenitor population 2 (PP2) and CTSK-mGFP negative mesenchymal stem cells (MSC). The aim of this project was to obtain Differentially expressed gene list for each cell types as well as compare transcriptinal profile between each population.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

16 Samples

Download data: XLS

(Submitter supplied) Stromal cells in bone are considered as a heterogenous population that have different locations and functions, though all of them can self-renew and differentiate into osteoblasts. We used single cell RNA sequencing(scRNA-seq) to dissect the heterogeneity of Stromal cell in the bone.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

7 Samples

Download data: ZIP

(Submitter supplied) The outer coverings of the skeleton, or periosteum, are arranged in concentric layers and act as a reservoir for tissue specific bone progenitors. Cellular heterogeneity within this tissue depot is increasingly recognized. Here, Pdgfra reporter animals were used to highlight a subset of periosteal progenitor cells with high osteogenic potential. Pdgfra+ periosteal progenitor cells enhanced osteogenic differentiation in vitro and improved fracture healing and bone regeneration in vivo. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

4 Samples

Download data: TXT

(Submitter supplied) Fracture healing is a process that involves many cell populations. In this study we characterized gene expression in a subset of cells involved in fracture healing. αSMACreERT2 mice crossed with Ai9 reporter mice that express tdTomato fluorescent protein after Cre-mediated activation were used as an experimental model. αSMA-expressing cells were labeled by tamoxifen administration, then periosteal cells from the tibia were isolated two days later (controls), or tibial fractures were performed and periosteum/soft callus tissue was collected after 2 and 6 days. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

9 Samples

Download data: TXT

(Submitter supplied) In order to assess the descendants of hypertrophic chondrocytes, we utilized Collagen10-Cre;Rosa26-tdTomato mouse total bone isolated at e16.5 by Collagenase II digestion after mechanical digestion and soft tissue removal. After sequencing and downstream analysis using Seurat, we observed clusters of cells with gene profiles matching classically defined chondrocytes, skeletal stem and progenitor cells (SSPCs), and osteoblasts. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

1 Sample

Download data: RDS

(Submitter supplied) To assess if descendants of the hypertrophic chondrocytes behaved as skeletal stem and progenitor cells, we performed colony unit formation. We observed a near equal proportion of colonies derived from hypertrophic chondrocytes (tomato+) and derived from other sources (likely periosteum). We performed bulk RNA-sequencing on 3 colonies from each origin to compare the gene profiles and potential differentiation capacity or niche support.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

6 Samples

Download data: XLSX

(Submitter supplied) In order to assess the descendants of hypertrophic chondrocytes, we utilized Collagen10-Cre;Rosa26-tdTomato mouse bone marrow harvested at 2 months of age by centrifugation and light Collagenase II digestion. After sequencing and downstream analysis using Seurat, we observed clusters of cells with gene profiles matching classically defined skeletal stem and progenitor cells as well as CXCL12 abundant reticular (CAR) cells. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

1 Sample

Download data: RDS

(Submitter supplied) A study of rat femoral fracture healing in young (6 weeks old at fracture), adult (26 weeks old at fracture), and old (52 weeks old at fracture) rats. Samples were collected at time of surgery (intact controls) and at 3 days, 1 week, 2 weeks, 4 weeks, and 6 weeks after fracture. Samples were the mid third of the femoral length including the external callus, cortical bone and marrow elements. Fracture was stabilized with an intramedullary rod prior to fracture with a Bonnarens and Einhorn device. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS1995

Platform:

GPL85

18 Samples

Download data: CEL

(Submitter supplied) mRNA gene expression was measured in intact female Sprague-Dawley rats at 6 (young), 26 (adult) and 52 (older) weeks of age at the time of fracture. Samples were collected at 0, 0.4, 1, 2, 4, and 6 weeks after fracture. RNA from two rats were pooled for each Affymetrix Rat U34A array. Mid-shaft, simple, transverse left femoral fractures were induced after retrograde intramedullary rod fixation with a Bonnarens and Einhorn device. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS509

Platform:

GPL85

54 Samples

Download data: CEL

(Submitter supplied) Study of rat femur fracture healing in young (6 weeks old), adult (26 weeks old), and older (52 weeks old) rats with samples collected at 0 time (no fracture) and at 0.4, 1, 2, 4, and 6 weeks after fracture. RNA from two rats were pooled for each array. Keywords = rat, femur, fracture, age, time Keywords: time-course

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL85

18 Samples

Download data: CEL

(Submitter supplied) mRNA gene expression was measured in rats at 6 (young), 26 (adult) and 52 (older) weeks of age at the time of fracture. Samples were collected at 0, 0.4, 1, 2, 4, and 6 weeks after fracture. RNA from two rats were pooled for each Affymetrix Rat U34A array. Keywords = rat Keywords = fracture Keywords = age Keywords = time Keywords = femur Keywords: time-course

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL85

18 Samples

Download data: CEL

Analysis of healing femurs of 6, 26, and 52-week-old Sprague-Dawley females at various time points up to 6 weeks after fracture. 6, 26, and 52-week-old animals regain normal skeletal biomechanics 4 weeks, 10 weeks, and 6 months after fracture, respectively.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 3 age, 2 protocol, 6 time sets

Platform:

GPL85

Series:

GSE1371

18 Samples

Download data: CEL

Temporal analysis of gene expression following femoral fracture. Female Sprague-Dawleys at 6 (young), 26 (adult) and 52 (older) weeks of age at time of fracture. Samples analyzed at 0, 3 days, 1, 2, 4, and 6 weeks after fracture.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 3 age, 6 time sets

Platform:

GPL85

Series:

GSE594

36 Samples

Download data: CEL

(Submitter supplied) Genetic comparison between periosteal skeletal stem cells and bone marrow skeletal stem cells in mice

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

11 Samples

Download data: CEL

(Submitter supplied) Periosteum is a major source of skeletal stem/progenitor cells (SSPCs) during bone repair. However, the cellular composition of the periosteum is poorly characterized. Here, we provide single-cell RNAseq data of periosteal cells isolated by explant culture at steady state and at day 3 post-tibial fracture. We found that periosteal cell populations are heterogeneous containing several sub-populations of SSPCs. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

2 Samples

Download data: MTX, TSV, XLSX

(Submitter supplied) Here, we use single-cell RNA-seq to define a cellular taxonomy of the mouse bone marrow stroma and its perturbation by malignancy. We identified stromal subsets expressing distinct hematopoietic regulatory genes, spanning new fibroblastic, and osteoblastic subpopulations. Emerging acute myeloid leukemia resulted in impaired osteogenic differentiation and reduced production of hematopoietic regulatory molecules necessary for normal hematopoiesis. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

23 Samples

Download data: MTX, TSV