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Dilated Cardiomyopathy in Dobermans and Boxers

ABSTRACT: This study attempts at investigating the changes in cardiac gene expression that occur in Dilated Cardiomyopathy (DCM). DCM in Dobermans and Boxers are the focus of this study. Control heart tissue as well as Pacing tissue used is from mongrel dogs. Keywords: control vs pacing vs disease; strain specific disease

ORGANISM(S): Canis lupus familiaris

PROVIDER: GSE11015 | GEO | 2008/05/08

SECONDARY ACCESSION(S): PRJNA107105

REPOSITORIES: GEO

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Dilated Cardiomyopathy in Dobermans and Boxers

Project description:This study attempts at investigating the changes in cardiac gene expression that occur in Dilated Cardiomyopathy (DCM). DCM in Dobermans and Boxers are the focus of this study. Control heart tissue as well as Pacing tissue used is from mongrel dogs. Keywords: control vs pacing vs disease; strain specific disease 3 Dobermans-DCM, 4 Boxers-DCM, 3 mongrels-control and 3 mongrels-pacing

2008-05-08 | E-GEOD-11015 | biostudies-arrayexpress

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Differential expression of mRNA expressed in healthy and Dobermanns affected with dilated cardiomyopathy

Project description:Dilated cardiomyopathy (DCM) affects both humans and dogs and is associated with shortened life-span and sudden death. Dobermanns have previously been described with genetic variants assoociated with disease, and in this study we wanted to study gene specific expression differences between healthy and DCM-affected individuals. Included in the cohort were nine dogs, four healthy and five clinical and pre-clinical cases. The cases were sampled shortly after death (within 30 minutes) and samples snap-frozen from different compartments of the heart. Prior to euthanization the dogs were evaluted by ultrasound, and histological evaluation of the tissues were also performed after tissue sampling for proper phenotyping. In this study tissues from the septal wall was used for mRNA-sequencing. The samples were prepared according to Illuminas protocol for library preparation (TruSeq® Stranded mRNA Library) and sequenced on an Illumina NextSeq 550. Following basecalling at Illumina BaseSpace FASTQ-files were proceessed through a pipeline of Trimmomatic, SortMeRNA, STAR, edgeR and DESeq2, with quality controlls in between at relevant steps with FastQC. No significantly differentially expressed genes could be identified with either edgeR or DESeq2, which may be due to too few samples in each group. The sequencing data was also used for visual inspection of potential splice variants associated with genetic variants identified in an other cohourt of DCM-affected Dobermanns evaluated with GWAS. A novel splice-variant identified in RNF207 causing a frame-shame shift excluding three codons, was confirmed in the present mRNA-seq data.

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Project description:Dilated Cardiomyopathy

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Project description:To investigate the physiological characteristics of cardiac fibroblasts (CF) from pediatric dilated cardiomyopathy (DCM) patients, CFs were harvested from left ventricular free wall at the heart transplantation. We then performed RNA-seq for 7 different lines of CFs.

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Project description:We aimed to identify aberrantly expressed microRNA and mRNA expression profiles of dilated cardiomyopathy (DCM) and explore their potential functions, 10 DCM blood samples and paired healthy control blood samples underwent RNA-sequence.

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