OncoScore: an R package to measure the oncogenic potential of genes

Motivation: We here present OncoScore, an open-source tool and R package that implements a novel text-mining method capable of ranking genes according to their association to cancer, based on available biomedical literature on PubMed. OncoScore can scan the biomedical literature with dynamically updatable web queries and measure the association to cancer of each gene by considering their citations. The output of the tool is a score that is measuring the strength of the association of the genes to cancer at the time of the analysis. Availability and Implementation: OncoScore is available on GitHub and as an R package on bioconductor.org. Furthermore, the queries to OncoScore can also be performed at http://www.galseq.com/oncoscore.html Contact: [email protected] or [email protected] Supplementary information: Supplementary data are available at Bioinformatics online.