Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE).

ABSTRACT:

Motivation

Identifying the cellular wiring that connects genomic perturbations to transcriptional changes in cancer is essential to gain a mechanistic understanding of disease initiation, progression and ultimately to predict drug response. We have developed a method called Tied Diffusion Through Interacting Events (TieDIE) that uses a network diffusion approach to connect genomic perturbations to gene expression changes characteristic of cancer subtypes. The method computes a subnetwork of protein-protein interactions, predicted transcription factor-to-target connections and curated interactions from literature that connects genomic and transcriptomic perturbations.

Results

Application of TieDIE to The Cancer Genome Atlas and a breast cancer cell line dataset identified key

SUBMITTER: Paull EO 

PROVIDER: S-EPMC3799471 | biostudies-literature | 2013 Nov

REPOSITORIES: biostudies-literature