cascading effects

  • Insights into Impact of DNA Copy Number Alteration and Methylation on the Proteogenomic Landscape of Human Ovarian Cancer via a Multi-omics Integrative Analysis
    Insights into Impact of DNA Copy Number Alteration and Methylation on the Proteogenomic Landscape of Human Ovarian Cancer via a Multi-omics Integrative Analysis
    Xiaoyu Song, Jiayi Ji, Kevin J. Gleason, Fan Yang, John A. Martignetti, Lin S. Chen and Pei Wang
    Molecular & Cellular Proteomics August 9, 2019, First published on June 21, 2019, 18 (8 suppl 1) S52-S65; https://doi.org/10.1074/mcp.RA118.001220

    To elucidate the proteogenomic functional consequences of DNA copy number and methylation alterations, an integrative analysis tool iProFun was proposed. Compared to conventional approaches, iProFun achieves enhanced power and accuracy. When applied to TCGA-CPTAC ovarian cancer data, iProFun identified a collection of genes whose CNAs and/or DNA methylations influence either some or all three types of molecular traits (mRNA level, global protein, and phosphoprotein abundances). Results from this analysis may help nominate or prioritize candidate drug targets for ovarian patients.