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| Status |
Public on Jan 12, 2021 |
| Title |
Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Ccn2a-/- cardiac ventricular Transcriptomes |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The goal of this study is to compare transcriptome level between 4 dpci wild-type and ccn2a-/- zebrafish cardiac ventricle. Methods: 4-days-post cryoinjured cardiac ventricular mRNA profiles of wild-type (WT) and cellular communication network factor 2a mutant (ccn2a−/−) zebrafish were generated by deep sequencing, in duplicate. Results: 7 genes showed differential expression between the WT and ccn2a−/− heart, with a fold change ≥1.5 and p value <0.05. Altered expression of all genes was confirmed with qRT–PCR. Conclusions: Our study represents the detailed analysis of 4 dpci wild-type and ccn2a-/- cardiac ventricular transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that 7 genes were dysregulated in 4 dpci ccn2a-/- cardiac ventricle. We concluded, this analysis helped us to identify downstream signalling cascade of Ccn2a in injured zebrafish heart."
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| Overall design |
Cardiac ventricular mRNA profiles of 4dpci wild type (WT) and ccn2a-/- zebrafish were generated by deep sequencing, in duplicate.
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| Contributor(s) |
Zacharias K, Stefan G, Chinmoy P |
| Citation(s) |
33234717 |
| |
| Submission date |
Jan 09, 2021 |
| Last update date |
Apr 16, 2021 |
| Contact name |
Stefan Günther |
| E-mail(s) |
stefan.guenther@mpi-bn.mpg.de
|
| Organization name |
MPI for heart and lung research
|
| Street address |
ludwigtr. 43
|
| City |
bad nauheim |
| ZIP/Postal code |
61231 |
| Country |
Germany |
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| Platforms (1) |
| GPL20828 |
Illumina NextSeq 500 (Danio rerio) |
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| Samples (4)
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| GSM5012124 |
4 dpci ccn2a-/- cardiac ventricles- Sample 1 |
| GSM5012125 |
4 dpci ccn2a-/- cardiac ventricles- Sample 2 |
| GSM5012126 |
4 dpci wild-type cardiac ventricles- Sample 1 |
| GSM5012127 |
4 dpci wild-type cardiac ventricles- Sample 2 |
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| Relations |
| BioProject |
PRJNA690939 |
| SRA |
SRP301067 |
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