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We present DRaWR, a network-based method for ranking genes or properties related to a given gene set. Such related genes or properties are identified from among the nodes of a large, heterogeneous network of biological information. Our method involves a random walk with restarts, performed on an initial network with multiple node and edge types, preserving more of the original, specific property information than current methods that operate on homogeneous networks. In this first stage of our algorithm, we find the properties that are the most relevant to the given gene set and extract a subnetwork of the original network, comprising only the relevant properties. We then rerank genes by their similarity to the given gene set, based on a second random walk with restarts, performed on the above subnetwork.
| Version: | 1.0.3 |
| Depends: | R (≥ 3.0) |
| Imports: | Matrix, ROCR, methods |
| Published: | 2022-03-24 |
| Author: | Charles Blatti [aut, cre] |
| Maintainer: | Charles Blatti <blatti at illinois.edu> |
| License: | GPL-2 |
| NeedsCompilation: | no |
| Materials: | NEWS |
| In views: | Omics |
| CRAN checks: | DRaWR results |
| Reference manual: | DRaWR.pdf |
| Package source: | DRaWR_1.0.3.tar.gz |
| Windows binaries: | r-devel: DRaWR_1.0.3.zip, r-release: DRaWR_1.0.3.zip, r-oldrel: DRaWR_1.0.3.zip |
| macOS binaries: | r-release (arm64): DRaWR_1.0.3.tgz, r-oldrel (arm64): DRaWR_1.0.3.tgz, r-release (x86_64): DRaWR_1.0.3.tgz, r-oldrel (x86_64): DRaWR_1.0.3.tgz |
| Old sources: | DRaWR archive |
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