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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 14, 2017 |
| Title |
RNA sequencing of LPS treated mouse bone marrow stromal cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Background: Lipopolysaccharide (LPS) is a gram-negative bacterial antigen that triggers a series of cellular responses. LPS pre-conditioning was previously shown to improve the therapeutic efficacy of bone marrow stromal cells/bone-marrow derived mesenchymal stem cells (BMSCs) for repairing ischemic, injured tissue.
Results: In this study, we systematically evaluated the effects of LPS treatment on genome-wide splicing pattern changes in mouse BMSCs by comparing transcriptome sequencing data from control vs. LPS-treated samples, revealing 197 exons whose BMSC splicing patterns were altered by LPS. Functional analysis of these alternatively spliced genes demonstrated significant enrichment of phosphoproteins, zinc finger proteins, and proteins undergoing acetylation. Additional bioinformatics analysis strongly suggest that LPS-induced alternatively spliced exons could have major effects on protein functions by disrupting key protein functional domains, protein-protein interactions, and post-translational modifications.
Conclusion: Although it is still to be determined whether such proteome modifications improve BMSC therapeutic efficacy, our comprehensive splicing characterizations provide greater understanding of the intracellular mechanisms that underlie the therapeutic potential of BMSCs.
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| Overall design |
6 samples (3 untreated wild type samples, 3 LPS treated wild type samples)
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| Contributor(s) |
Liu Y, Wang Y, Gao H |
| Citation(s) |
27557078 |
| Submission date |
Dec 30, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Yunlong Liu |
| Organization name |
IUPUI
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| Street address |
410 West 10th Street, HS 5000
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| City |
Indianapolis |
| State/province |
IN |
| ZIP/Postal code |
46202 |
| Country |
USA |
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| Platforms (1) |
| GPL15907 |
AB 5500xl Genetic Analyzer (Mus musculus) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA271325 |
| SRA |
SRP051614 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE64568_ProcessedData.txt.gz |
1003.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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