DGIdb_interactions_df

Data frame containing drug-gene interactions from expert-curated sources
(CancerCommons, CGI, ChemblInteractions, CIViC, ClearityFoundationBiomarkers,
ClearityFoundationClinicalTrial, COSMIC, DoCM, MyCancerGenome,
MyCancerGenomeClinicalTrial, TALC, TdgClinicalTrial, TEND)
from DGIdb.

datasets

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>.

Ege Ulgen

PANACEA

Personalized Network-Based Anti-Cancer Therapy Evaluation

DGIdb_interactions_df function

a data frame containing 11323 rows and 2 variables:<dl>
<dt>drug_name</dt>
<dd>Drug name</dd><dt>gene_name</dt>
<dd>HGNC gene symbol for the interacting gene</dd>
</dl>

Format

DGIdb Interactions Expert-curated Sources — DGIdb_interactions_df

a data frame containing 11323 rows and 2 variables:<dl>
<dt>drug_name</dt>
<dd>Drug name</dd>

<dt>gene_name</dt>
<dd>HGNC gene symbol for the interacting gene</dd>


</dl>

DGIdb_interactions_df: DGIdb Interactions Expert-curated Sources

Description

Usage

Arguments

Format