Integrating DNA methylation and gene expression data in a single gene network using the iNETgrate package.

ABSTRACT: Analyzing different omics data types independently is often too restrictive to allow for detection of subtle, but consistent, variations that are coherently supported based upon different assays. Integrating multi-omics data in one model can increase statistical power. However, designing such a model is challenging because different omics are measured at different levels. We developed the iNETgrate package ( https://bioconductor.org/packages/iNETgrate/ ) that efficiently integrates transcriptome and DNA methylation data in a single gene network. Applying iNETgrate on five independent datasets improved prognostication compared to common clinical gold standards and a patient similarity network approach.

SUBMITTER: Sajedi S 

PROVIDER: S-EPMC10709411 | biostudies-literature | 2023 Dec

REPOSITORIES: biostudies-literature