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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jan 01, 2020 |
| Title |
Genome wide gene expression profiling and methylation profiling of directly reprogrammed osteoblasts from mouse fibroblasts |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
We identified four transcriptional factors, Runx2, Osx, Dlx5, and ATF4, that rapidly and efficiently reprogram mouse fibroblasts derived from 2.3 kb type I collagen promoter-driven green fluorescent protein (Col2.3GFP) transgenic mice into induced osteoblast cells (iOBs). The global transcriptome profiling validated that iOBs resemble primary osteoblasts. Genome-wide DNA methylation analysis demonstrates that within differentially methylated loci, the methylation status of iOBs more closely resembles primary osteoblasts than mouse fibroblasts. We further demonstrate that Col2.3GFP+ iOBs have transcriptome profiles similar to GFP+ cells derived from Col2.3GFP transgenic mouse bone chips.
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| Overall design |
Examine gene expression profiling of Induced osteoblasts (iOB), fibroblast, calvarial derived osteoblast (calvarial-OB), Col2.3GFP+ sorted from iOB (iOB GFP+), Col2.3GFP+ sorted from bone chip (Bone chip GFP+); Examine mathylation profiling of iOB, fibroblast, calvaril-OB
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| Contributor(s) |
Zhu H, Wu J |
| Citation(s) |
31793059 |
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| Submission date |
Nov 04, 2019 |
| Last update date |
Apr 01, 2020 |
| Contact name |
Hui Zhu |
| E-mail(s) |
huizhu@stanford.edu
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| Organization name |
Stanford Universtiy
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| Street address |
1651 Page Mill Road
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| City |
stanford |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (33)
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| Relations |
| BioProject |
PRJNA587510 |
| SRA |
SRP228558 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE139907_DMR_fibroblast_OB_iOB_mean_rms.txt.gz |
109.5 Kb |
(ftp)(http) |
TXT |
| GSE139907_iOB_GFP+_vs_fibroblast.txt.gz |
952.8 Kb |
(ftp)(http) |
TXT |
| GSE139907_iOB_vs_fibroblast.txt.gz |
959.2 Kb |
(ftp)(http) |
TXT |
| GSE139907_processed_data_Fibroblast_iOB_and_calvarial.txt.gz |
277.4 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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