|
| Status |
Public on Feb 22, 2016 |
| Title |
Injury-dependent hydrogen peroxide oxidation of IKK-alpha regulates keratinocyte migration through induction of EGF |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Hydrogen peroxide is known to promote skin keratinocyte migration, although the mechanism of action is unclear. In an attempt to identify signaling pathways regulated by hydrogen peroxide in the skin, 3 day post fertilized (dpf) zebrafish larvae (nacre strain) were treated with 3mM hydrogen peroxide for 2 hours and subjected to RNA-seq analyses. Pools of about 1000 embryos for each of three biological replicates were derived from 5 independent mating pairs and raised to larval stages until 3 dpf. All larvae were subsequently homogenized in Trizol and total RNA was extracted using a chloroform extraction protocol treated with DNAse. Messenger RNA (mRNA) was subsequently purified from total RNA using biotin-tagged poly dT oligonucleotides and streptavidin-coated magnetic beads, followed by quality control using an Agilent Technologies 2100 Bioanalyzer (values >7 were used for sequencing). The poly(A)-tailed mRNA samples were fragmented and double-stranded cDNA generated by random priming for deep sequencing studies.
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| |
|
| Overall design |
6 samples total were analyzed. 3 untreated, and 3 hydrogen peroxide treated (3mM, 2hr)
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| |
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| Contributor(s) |
Lisse TS, King BL, Rieger S |
| Citation(s) |
26846883 |
| Submission date |
Dec 05, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Benjamin L King |
| E-mail(s) |
benjamin.l.king@maine.edu
|
| Phone |
207-581-2803
|
| Organization name |
University of Maine
|
| Department |
Molecular and Biomedical Sciences
|
| Street address |
5735 Hitchner Hall
|
| City |
Orono |
| State/province |
ME |
| ZIP/Postal code |
04469 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL14875 |
Illumina HiSeq 2000 (Danio rerio) |
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| Samples (6)
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|
| Relations |
| BioProject |
PRJNA305195 |
| SRA |
SRP067067 |
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