E-GEOD-21610 - Transcription profiling by array of human myocardial tissue before and after ventricular assist device support

Status
Released on 29 July 2010, last updated on 1 May 2014
Organism
Homo sapiens
Samples (68)
Array (1)
Protocols (8)
Description
Mechanical unloading by ventricular assist devices (VAD) leads to significant gene-expression changes often summarized as reverse remodeling. However, little is known on individual transcriptome changes during VAD-support and its relationship to non-failing hearts (NF). In addition no data are available for the transcriptome regulation during non-pulsatile VAD-support. Therefore we analysed the gene-expression patterns of 30 paired samples from VAD-supported (including 8 non-pulsatile VADs) and 8 non-failing control hearts (NF) using the first total human genome-array available. Transmural myocardial samples were collected for RNA-isolation. RNA was isolated by commercial methods and processed according to chip-manufacturer recommendations. cRNA were hybridized on Affymetrix HG-U133 Plus 2.0 arrays, providing coverage of the whole human genome Array. Data was analyzed using Microarray Analysis Suite 5.0 (Affymetrix) and clustered by Expressionist software (Genedata). 352 transcripts were differentially regulated between samples from VAD-implantation and NF, whereas 510 were significantly regulated between VAD-transplantation and NF (paired t-test p<0.001, fold change >=1.6). Remarkably, only a minor fraction of 111 transcripts was regulated in heart failure (HF) and during VAD-support. Unsupervised hierarchical clustering of paired VAD- and NF-samples revealed separation of HF- and NF- samples, however individual differentiation of VAD-implantation and VAD-transplantation was not accomplished. Clustering of pulsatile and non-pulsatile VAD did not lead to robust separation of gene expression patterns. During VAD-support myocardial gene expression changes do not indicate reversal of the HF-phenotype, but reveal a distinct HF-related pattern. Transcriptome analysis of pulsatile and non-pulsatile VAD-supported hearts did not provide evidence for a pump-mode specific transcriptome pattern. Microarrays were used to elucidate the differences between non-failing control hearts and those, suffering from end-stage heart failure pre and post mechanical unloading.
Experiment type
transcription profiling by array 
Contacts
Patrick Schwientek <hmilting@hdz-nrw.de>, Aly El Banayosy, Astrid Kassner, Daniela Röfe, Hendrik Milting, Michael Seewald, Michiel Morshuis, Peter Ellinghaus, Ramona Cebulla, Reiner Körfer, Sebastian Schulte-Eistrup, Sonja Steppan
Citation
Global gene expression analysis in non-failing and failing myocardium pre and post pulsatile and non-pulsatile ventricular assist device support. Schwientek P, Ellinghaus P, Steppan S, D'Urso D, Seewald MJ, Kassner A, Cebulla R, Schulte-Eistrup S, Morshuis M, Röfe D, El Banayosy A, Körfer R, Milting H. , Europe PMC 20460602
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-21610.idf.txt
Sample and data relationshipE-GEOD-21610.sdrf.txt
Raw data (2)E-GEOD-21610.raw.1.zip, E-GEOD-21610.raw.2.zip
Processed data (1)E-GEOD-21610.processed.1.zip
Array designA-AFFY-44.adf.txt
R ExpressionSetE-GEOD-21610.eSet.r
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