Transcriptomics

Dataset Information

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RNA-seq of 12-weeks-old male murine heart ventricles.


ABSTRACT: RNA-Seq analysis of mouse cardiac transcriptome. RNA was isolated from the ventricles of 12-weeks-old male mice. Sequencing libraries were prepared using TrueSeq Stranded RNA LT Kit Ribo-Zero Gold (Illumina, 15032619). Libraries were pair-end sequenced on a MiSeq sequencer (Illumina) and mapped to the Mus musculus reference genome GRCm38 (https://support.illumina.com/sequencing/sequencing_software/igenome.html) using TopHat2 (Kim et al., 2013). Differential gene-expression analysis between controls and the EphB4 flox mice was performed using DESeq2 (Love et al., 2014). Read counts were obtained with HTSeq (Anders et al., 2015). Genes were considered as differentially expressed when the FDR-adjusted p-value was Ôëñ0.05.

INSTRUMENT(S): do not apply, Illumina MiSeq

ORGANISM(S): Mus musculus  

SUBMITTER: Ralf H. Adams   Juan M Vaquerizas   Noelia Díaz   Guillermo Luxán  

PROVIDER: E-MTAB-7686 | ArrayExpress | 2020-01-15

SECONDARY ACCESSION(S): ERP113811

REPOSITORIES: ArrayExpress, ENA

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Publications


The homeostasis of heart and other organs relies on the appropriate provision of nutrients and functional specialization of the local vasculature. Here, we have used mouse genetics, imaging and cell biology approaches to investigate how homeostasis in the adult heart is controlled by endothelial EphB4 and its ligand ephrin-B2, which are known regulators of vascular morphogenesis and arteriovenous differentiation during development. We show that inducible and endothelial cell-specific inactivatio  ...[more]

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