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Status |
Public on Oct 29, 2020 |
Title |
Small RNA libraries from epidermal stem cell (ESC) and fibroblast (Fb) derived exosomes |
Organism |
Mus musculus |
Experiment type |
Non-coding RNA profiling by high throughput sequencing
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Summary |
We employed high-throughput sequencing to profile the non-coding RNA content of primary ESC and Fb derived exosomes. All 6 libraries were sequenced to a comparable depth (ESC1: 12.3M, ESC2: 14M, ESC3: 12.8M, FB1: 14.7M, FB2: 13.7M, FB3: 12.3M) and exhibited a very low proportion of adapter-only reads or fragments shorter than 17bp (4.4 ± 0.5% ), showing efficient fragment incorporation during library preparation. All libraries had high small RNA content (>50% successfully aligned and assigned to small RNAs). ESC libraries had significantly higher small RNA content (ESC: 84.5 ± 0.005% vs FB: 60.5 ± 0.05%, p<0.05, two-sided Welch’s t-test). ESC samples show remarkably higher proportions of miRNAs (~9-fold higher, p=3.6*10-5 ) and snRNAs (~12-fold higher, p=0.002) compared to Fb. Fibroblasts exhibited higher RPM of reads mapping on lncRNAs (4-fold, p=0.052)
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Overall design |
Non-coding RNA-seq was performed on three biological replicates each of mouse epidermal stem cell (ESC) and dermal fibroblast (Fb) derived exosomes
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Contributor(s) |
Theocharidis G, Vlachos IS |
Citation(s) |
35181300 |
Submission date |
May 18, 2020 |
Last update date |
Feb 22, 2022 |
Contact name |
Aristidis Veves |
E-mail(s) |
aveves@bidmc.harvard.edu
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Phone |
6176627075
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Organization name |
Beth Israel Deaconess Medical Center
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Lab |
Rongxiang Xu, MD, Center for Regenerative Therapeutics
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Street address |
330 Brookline Ave
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City |
Boston |
State/province |
MA |
ZIP/Postal code |
02215 |
Country |
USA |
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Platforms (1) |
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Samples (6)
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Relations |
BioProject |
PRJNA633535 |
SRA |
SRP262156 |