Application of network diffusion approaches to drug screenings: A perspective on multilayered networks derived from cell lines and drugs
- Published
- Accepted
- Subject Areas
- Computational Biology, Computational Science
- Keywords
- Multiplex heterogeneous networks, Random walk with Restart, Network diffusion
- Copyright
- © 2017 Subramanian et al.
- Licence
- This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
- Cite this article
- 2017. Application of network diffusion approaches to drug screenings: A perspective on multilayered networks derived from cell lines and drugs. PeerJ Preprints 5:e3339v1 https://doi.org/10.7287/peerj.preprints.3339v1
Abstract
Network diffusion approaches are frequently used for identifying the relevant disease genes and for prioritizing the genes for drug sensitivity predictions. Majority of these studies rely on networks representing a single type of information. However, using multiplex heterogeneous networks (networks with multiple interconnected layers) is much more informative and helps to understand the global topology. We built a multi-layered network that incorporates information on protein-protein interactions, drug-drug similarities, cell line-cell line similarities and co-expressed genes. We applied Random Walk with Restart algorithm to investigate the interactions between drugs, targets and cancer cell lines. Results of ANOVA models show that these prioritized genes are among the most significant ones that relate to drug response. Moreover, the predictive power of the drug response prediction models built using the gene expression data of only the top ranked genes is similar to the models built using all the available genes. Taken together, the results confirm that the multiplex heterogeneous network-based approach is efficient in identifying the most significant genes associated with drug response.
Author Comment
This is an abstract which has been accepted for the NETTAB 2017 Workshop.