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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 |
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Submission date |
Aug 15, 2013 |
Last update date |
May 15, 2019 |
Contact name |
Zhiyuan Gong |
E-mail(s) |
dbsgzy@nus.edu.sg
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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 |