DOI: 10.1101/2023.05.22.540912

preon: Fast and accurate entity normalization for drug names and cancer types in precision oncology

A.Ermshaus M. Piechotta G. Ruter U. Keilholz U. Leser M. Benary

摘要

Motivation: In precision oncology, clinicians are aiming to find the best treatment for any patient based on their molecular characterization. A major bottleneck is the annotation and evaluation of individual variants, for which usually a range of knowledge bases are manually screened. To incorporate and integrate the vast information of different databases, fast and accurate methods for harmonization are necessary. Summary: preon is a fast and accurate library for the normalization of drug names and cancer types in large-scale data integration. Availability and Implementation: preon is implemented in Python and freely available via the PyPI repository. Source code and gold standard data sets are available at https://github.com/ermshaua/preon/.

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