|
| Status |
Public on Aug 03, 2017 |
| Title |
Cdk8 overexpression effects in heart |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Analysis of ventricular derived mRNA from cardiac specific Cdk8 overexpressing mice. Results provide insight into the molecular mechanisms underlying dilated cardiomyopathy and heart failure.
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| |
|
| Overall design |
Methods: Ventricular samples (5 per group) from 21-day-old cardiac specific Cdk8 overexpressing versus wildtype male mice were used to generate polyA enriched stranded RNA libraries followed by RNAseq using the Illumina HiSeq platform. Raw sequence reads were analyzed with BaseSpace (www.illumina.com) by trimming to 125bp and aligning reads to the mus musculus mm10 genome using the TopHat Alignment app. Transcripts were assembled and significant differentially expressed genes were determined with the Cufflinks Assembly and DE app using a false discovery rate <0.05. Genes with >1.5 fold expression changes were used for further analyses. qRT–PCR validation was performed using SYBR Green assays.
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| |
|
| Contributor(s) |
Grueter C |
| Citation(s) |
28768905 |
| |
| Submission date |
Mar 24, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Duane Hall |
| E-mail(s) |
duane-hall@uiowa.edu
|
| Organization name |
University of Iowa
|
| Department |
Internal Medicine
|
| Lab |
2269 CBRB
|
| Street address |
285 Newton Rd
|
| City |
Iowa City |
| State/province |
IA |
| ZIP/Postal code |
52242 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
|
| Samples (10)
|
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| Relations |
| BioProject |
PRJNA380422 |
| SRA |
SRP102453 |
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