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| Status |
Public on Aug 11, 2023 |
| Title |
Effects of AR-42 Treatment on Gene Expression in the Zebrafish Tail Fin Amputation (TFA) Model |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We investigated the inflammatory environmental effects of AR-42 on neutrophil recruitment by performing an RNA-seq analysis with tail tissue in the zebrafish TFA model. The RNA-seq results showed that AR-42 modulates cytokine/chemokine signaling in the local inflammatory environment.
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| Overall design |
For RNA sequencing (RNA-seq) analysis, the 3-dpf WT zebrafish larvae receiving DMSO or 10 μM AR-42 treatments were categorized into 4 groups: ① DMSO treated larvae without TFA modeling (referred to as DMSO), ② AR-42 treated larvae without TFA modeling (AR-42), ③ DMSO treated larvae with TFA modeling (DMSO_TFA) and ④ AR-42 treated larvae with TFA modeling (AR-42_TFA). And there are four biological replicates in each group. After tail fin amputation, larvae were immediately treated with DMSO or 10 μM AR-42 for 1 hr before sampling. Tail tissues posterior to the cloaca in each larva were collected (n = 150) and immediately froze in liquid nitrogen before RNA isolation.
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| Contributor(s) |
Ren C, Fan S, Jiang J |
| Citation(s) |
37728477 |
| Submission date |
Aug 04, 2023 |
| Last update date |
Nov 16, 2023 |
| Contact name |
Sijia Fan |
| Organization name |
Chongqing medical university
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| Street address |
Chongqing Medical University, Medical College Road, Yuzhong District
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| City |
Chongqing |
| ZIP/Postal code |
400016 |
| Country |
China |
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| Platforms (1) |
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| Samples (16)
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| GSM7681254 |
zebrafish, DMSO_4, 3dpf |
| GSM7681255 |
zebrafish, AR42_1, 3dpf |
| GSM7681256 |
zebrafish, AR42_2, 3dpf |
| GSM7681257 |
zebrafish, AR42_3, 3dpf |
| GSM7681258 |
zebrafish, AR42_4, 3dpf |
| GSM7681259 |
zebrafish, DMSO_TFA_1, 3dpf |
| GSM7681260 |
zebrafish, DMSO_TFA_2, 3dpf |
| GSM7681261 |
zebrafish, DMSO_TFA_3, 3dpf |
| GSM7681262 |
zebrafish, DMSO_TFA_4, 3dpf |
| GSM7681263 |
zebrafish, AR42_TFA_1, 3dpf |
| GSM7681264 |
zebrafish, AR42_TFA_2, 3dpf |
| GSM7681265 |
zebrafish, AR42_TFA_3, 3dpf |
| GSM7681266 |
zebrafish, AR42_TFA_4, 3dpf |
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| Relations |
| BioProject |
PRJNA1002260 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE240080_All_reads_counts.txt.gz |
3.5 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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