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Series GSE145477 Query DataSets for GSE145477
Status Public on May 01, 2020
Title Single cell transcriptomics analysis of bone marrow mesenchymal lineage cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Bone marrow mesenchymal lineage cells are a heterogeneous cell population involved in bone homeostasis and diseases such as osteoporosis. While it is long postulated that they originate from mesenchymal stem cells (MSCs), the true identity of MSCs and their in vivo bifurcated differentiation routes into osteoblasts and adipocytes remain poorly understood. Here, by employing large scale single cell transcriptome analysis, we computationally defined MSCs and delineated their bi-lineage differentiation paths in young, adult and aging mice. One identified subpopulation is a unique cell type that expresses adipocyte markers but contains no lipid droplets. As non-proliferative precursors for adipocytes, they exist abundantly as pericytes and stromal cells that form a ubiquitous 3D network inside the marrow cavity. Functionally they play critical roles in maintaining marrow vasculature and suppressing bone formation. Therefore, we name them marrow adipogenic lineage precursors (MALPs) and conclude that they are a new component of marrow adipose tissue.
 
Overall design 4 batches of single cell libraries for sequencing: endosteal Td+ bone marrow cells from 1-month-old (n=2), 1.5-month-old (n=3), 3-month-old (n=3) and 16-month-old (n=3) male Col2/Td mice. 20,000 cells were loaded in aim of acquiring one single library of 10,000 cell for each age group by Chromium controller (V3 chemistry version, 10X Genomics Inc, San Francisco, USA), barcoded and purified as described by the manufacturer, and sequenced using a 2x150 pair-end configuration on an Illumina HiSeq platform at a sequencing depth of ~400 million reads.
 
Contributor(s) Zhong L, Yao L, Tower RJ, Wei Y, Miao Z, Park J, Shrestha R, Wang L, Yu W, Holdreith N, Zhang Y, Tong W, Gong Y, Ahn J, Susztak K, Dyment N, Li M, Long F, Chen C, Seale P, Qin L
Citation(s) 32286228, 35393948
Submission date Feb 18, 2020
Last update date May 11, 2022
Contact name Lutian Yao
E-mail(s) ltyao@cmu.edu.cn
Organization name the First Affiliated Hospital of China Medical University
Department Department of Orthopedic
Street address 155 Nanjing st
City Shenyang
ZIP/Postal code 110001
Country China
 
Platforms (1)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (4)
GSM4318799 1M
GSM4318800 1.5M
GSM4318801 3M
Relations
BioProject PRJNA607287
SRA SRP249844

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
GSE145477_RAW.tar 73.7 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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