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| Status |
Public on Jan 01, 2021 |
| Title |
Expression profiling of microRNAs during osteogenic differentiation of human MSCs |
| Platform organism |
synthetic construct |
| Sample organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by array
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| Summary |
The goal of this study was to determine expression profiles of microRNAs (miRNAs) in whole cell extracts of human bone marrow-derived mesenchymal stem/stromal cells (MSCs) as well as in MSCs during osteogenic differentiation. MicroRNAs are epigenetic regulators that commonly function by targeting specific mRNAs resulting in suppression of protein expression and modulation of a number of cellular pathways. This experiment is part of a larger study analyzing the expression of mitochondria-associated miRNAs in MSCs during osteogenesis that we recently submitted to GEO (Series GSE134946). Here, the same three human MSC lines were used in this study, under the same osteogenic induction conditions, to generate expression profiles of miRNAs present in whole cell extracts. A standard in vitro osteogenesis assay system was used to differentiate MSCs toward the osteoblast lineage.Purified whole cell extracts were obtained from MSCs or from MSCs at specific time points of osteogenic induction. RNA was isolated from whole cell extracts and then biotin-labeled in preparation for microRNA array (Affymetrix miRNA array 4.0). Array data was analyzed to generate information on most abundantly-expressed miRNAs in non-induced MSCs as well as in MSCs at set time points (day 3, 7, or 14) of osteogenic induction. Information on significantly differentially-expressed miRNAs during osteogenesis (comparing day 0 with either day 3, 7 or 14) was also obtained.
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| Overall design |
In this study, 3 independent human bone marrow-derived MSC cell lines were used. Each MSC cell line was differentiated toward the osteoblast lineage and RNA was isolated from MSCs at day 3, 7, or 14 of differentiation. As a control, RNA from non-induced MSCs (day 0) was also collected, Therefore, 12 samples in total were analyzed.
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| Contributor(s) |
McAlinden A, Zheng H, Yu J |
| Citation(s) |
34144232 |
| Submission date |
Apr 03, 2020 |
| Last update date |
Mar 31, 2022 |
| Contact name |
Jinsheng Yu |
| E-mail(s) |
jyu@wustl.edu
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| Organization name |
Washington University School of Medicine
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| Department |
Genetics
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| Lab |
GTAC Lab
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| Street address |
660 S. Euclid Ave.
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| City |
St. Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
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| Platforms (1) |
| GPL21572 |
[miRNA-4] Affymetrix Multispecies miRNA-4 Array [ProbeSet ID version] |
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| Samples (12)
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| GSM4453052 |
Cells at timepoint Day 0, repeat 1 (29570) |
| GSM4453053 |
Cells at timepoint Day 3, repeat 1 (29571) |
| GSM4453054 |
Cells at timepoint Day 7, repeat 1 (29572) |
| GSM4453055 |
Cells at timepoint Day 14, repeat 1 (29573) |
| GSM4453056 |
Cells at timepoint Day 0, repeat 2 (29574) |
| GSM4453057 |
Cells at timepoint Day 3, repeat 2 (29575) |
| GSM4453058 |
Cells at timepoint Day 7, repeat 2 (29576) |
| GSM4453059 |
Cells at timepoint Day 14, repeat 2 (29577) |
| GSM4453060 |
Cells at timepoint Day 0, repeat 3 (29578) |
| GSM4453061 |
Cells at timepoint Day 3, repeat 3 (29579) |
| GSM4453062 |
Cells at timepoint Day 7, repeat 3 (29580) |
| GSM4453063 |
Cells at timepoint Day 14, repeat 3 (29581) |
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| Relations |
| BioProject |
PRJNA622951 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE148049_RAW.tar |
9.4 Mb |
(http)(custom) |
TAR (of CEL, CHP) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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