Enhanced PAM50 subtyping of breast cancer implemented in the PCAPAM50 R package.

ABSTRACT: Breast cancer subtyping is commonly performed using two distinct approaches: immunohistochemistry (IHC) for clinical decision-making and PAM50 gene expression-based intrinsic subtyping, widely applied in research. While both methods are well-established, discrepancies in subtype classification between them highlight the need for improved concordance. To address this, we previously developed PCA-PAM50, a method that was able to enhance the concordance between the two approaches by reclassifying an aggressive subset of PAM50 Luminal A tumors as Luminal B, with clinical significance. Here, we introduce PCA-PAM50 as a reengineered, open-source R package PCAPAM50 available on CRAN. The package features optimized performance with user-friendly functionality requiring minimal input, providing eas

SUBMITTER: Raj-Kumar PK 

PROVIDER: S-EPMC12789466 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature