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| Status |
Public on Nov 12, 2013 |
| Title |
Transcriptomic analyses of TCDD treated zebrafish liver |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To fully understand molecular toxicity of TCDD in an in vivo animal model, adult zebrafish were exposed to TCDD at 10 nM for 96 h and the livers were sampled for RNA-sequencing based transcriptomic profiling. A total of 1,058 differently expressed genes were identified based on fold-change>2 and TPM (transcripts per million) >10. Among the top 20 up-regulated genes, 10 novel responsive genes were identified and verified by qRT-PCR analysis on independent samples. Transcriptomic analysis indicated several deregulated pathways associated with cell cycle, endocrine disruptors, signal transduction and immune systems. Comparative analyses of TCDD-induced transcriptomic changes between fish and mammalian models revealed that proteomic pathway is consistently up-regulated while calcium signaling pathway and several immune-related pathways are generally down-regulated.
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| Overall design |
Transcriptome profiling of treated sample (TCDD) and control sample (DMSO) were generated by deep sequencing using 3' RNA-SAGE with SOLiD system
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| Contributor(s) |
Li Z, Xu H, Zheng W, Lam SH, Gong Z |
| Citation(s) |
24204792 |
| |
| Submission date |
Aug 15, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Zhiyuan Gong |
| E-mail(s) |
dbsgzy@nus.edu.sg
|
| Organization name |
National University of Singapore
|
| Street address |
Kent Ridge
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| City |
Singapore |
| ZIP/Postal code |
119077 |
| Country |
Singapore |
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| Platforms (1) |
| GPL10658 |
AB SOLiD System 3.0 (Danio rerio) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA215326 |
| SRA |
SRP028848 |
