PANACEA: Personalized Network-Based Anti-Cancer Therapy Evaluation (original) (raw)
Identification of the most appropriate pharmacotherapy for each patient based on genomic alterations is a major challenge in personalized oncology. 'PANACEA' is a collection of personalized anti-cancer drug prioritization approaches utilizing network methods. The methods utilize personalized "driverness" scores from 'driveR' to rank drugs, mapping these onto a protein-protein interaction network. The "distance-based" method scores each drug based on these scores and distances between drugs and genes to rank given drugs. The "RWR" method propagates these scores via a random-walk with restart framework to rank the drugs. The methods are described in detail in Ulgen E, Ozisik O, Sezerman OU. 2023. PANACEA: network-based methods for pharmacotherapy prioritization in personalized oncology. Bioinformatics <doi:10.1093/bioinformatics/btad022>.
Version: | 1.0.1 |
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Depends: | R (≥ 4.0) |
Imports: | org.Hs.eg.db, DBI, igraph, reshape2 |
Suggests: | rmarkdown, knitr, testthat (≥ 3.0.0), covr |
Published: | 2023-08-19 |
DOI: | 10.32614/CRAN.package.PANACEA |
Author: | Ege Ulgen [aut, cre, cph] |
Maintainer: | Ege Ulgen |
BugReports: | https://github.com/egeulgen/PANACEA/issues |
License: | MIT + file |
URL: | https://github.com/egeulgen/PANACEA,https://egeulgen.github.io/PANACEA/ |
NeedsCompilation: | yes |
Citation: | PANACEA citation info |
Materials: | README NEWS |
CRAN checks: | PANACEA results |
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