Identification of dilated cardiomyopathy signature genes through gene expression and network data integration

Anyela Camargo, Francisco Azuaje*

*Corresponding author for this work

    Research output: Contribution to journalArticleResearchpeer-review

    34 Citations (Scopus)

    Abstract

    Dilated cardiomyopathy (DCM) is a leading cause of heart failure (HF) and cardiac transplantations in Western countries. Single-source gene expression analysis studies have identified potential disease biomarkers and drug targets. However, because of the diversity of experimental settings and relative lack of data, concerns have been raised about the robustness and reproducibility of the predictions. This study presents the identification of robust and reproducible DCM signature genes based on the integration of several independent data sets and functional network information. Gene expression profiles from three public data sets containing DCM and non-DCM samples were integrated and analyzed, which allowed the implementation of clinical diagnostic models. Differentially expressed genes were evaluated in the context of a global protein-protein interaction network, constructed as part of this study. Potential associations with HF were identified by searching the scientific literature. From these analyses, classification models were built and their effectiveness in differentiating between DCM and non-DCM samples was estimated. The main outcome was a set of integrated, potentially novel DCM signature genes, which may be used as reliable disease biomarkers. An empirical demonstration of the power of the integrative classification models against single-source models is also given.

    Original languageEnglish
    Pages (from-to)404-413
    Number of pages10
    JournalGenomics
    Volume92
    Issue number6
    DOIs
    Publication statusPublished - Dec 2008

    Keywords

    • Biodata mining and integration
    • Diagnostic systems
    • Dilated cardiomyopathy
    • Gene expression data
    • Heart failure
    • Protein networks

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