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| Status |
Public on Jun 23, 2020 |
| Title |
Transcriptomic profiling of the liver from zebrafish larvae exposed to 175 mM and 350 mM ethanol for 24 hours (collected at 120 hpf) |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Exposure to ethanol causes liver injury and activates stress response pathways. Here we compared gene expression in the zebrafish larval liver between larvae that were untreated and those exposed to 175 mM and 350 mM ethanol from 96-120 hours post fertilization (hpf).
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| Overall design |
We utlized transgenic zebrafish larvae that express a fluorescent protein in the endoplasmic reticulum (tg(fabp10a: ER-tdTomato) specifically in hepatocytes as this is used to guide the microdisssection of larval livers. This experiment was conducted by natural spawnings between tg:(fabp10:ER-tdTomato) and WT-ABNYU and larvae were exposed from 96-120 hpf to 0, 175 and 350 mM ethanol. We collected livers from 20-35 larvae for each condition and these were pooled for total RNA extraction using TRIZOL and library preparation using polyA selection as per manufacturer's instructions. Samples were obtained from 5 separate clutches. Samples were sequenced on NextSeq550 (Illumina).
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| Contributor(s) |
Ramdas Nair AR, Zhang C, Sadler (Edepli) KC |
| Citation(s) |
34863900 |
| |
| Submission date |
May 27, 2020 |
| Last update date |
Feb 29, 2024 |
| Contact name |
Kirsten Sadler Edepli |
| E-mail(s) |
kirsten.edepli@nyu.edu
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| Phone |
971568327587
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| Organization name |
New York University Abu Dhabi
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| Department |
Biology
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| Street address |
PO Box 129188
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| City |
Abu Dhabi |
| State/province |
Abu Dhabi |
| ZIP/Postal code |
000 |
| Country |
United Arab Emirates |
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| Platforms (1) |
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| Samples (14)
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| GSM4572111 |
5 dpf Untreated liver - clutch 1 |
| GSM4572112 |
5 dpf liver exposed to 175 mM Ethanol - clutch 1 |
| GSM4572113 |
5 dpf liver exposed to 350 mM Ethanol - clutch 1 |
| GSM4572114 |
5 dpf Untreated liver - clutch 2 |
| GSM4572115 |
5 dpf liver exposed to 175mM Ethanol - clutch 2 |
| GSM4572116 |
5 dpf Untreated liver - clutch 4 |
| GSM4572117 |
5 dpf liver exposed to 175mM Ethanol - clutch 4 |
| GSM4572118 |
5 dpf liver exposed to 350 mM Ethanol - clutch 4 |
| GSM4572119 |
5 dpf Untreated liver - clutch 5 |
| GSM4572120 |
5 dpf liver exposed to 175mM Ethanol - clutch 5 |
| GSM4572121 |
5 dpf liver exposed to 350 mM Ethanol - clutch 5 |
| GSM4572122 |
5 dpf Untreated liver - clutch 7 |
| GSM4572123 |
5 dpf liver exposed to 175mM Ethanol - clutch 7 |
| GSM4572124 |
5 dpf liver exposed to 350 mM Ethanol - clutch 7 |
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| Relations |
| BioProject |
PRJNA635397 |
| SRA |
SRP264975 |
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