Fig 1.
Density plot of CNA Score distribution for METABRIC luminal cases.
CNA Quartiles 1-4 with threshold scores ∼3335, ∼5547 and ∼8064 respectively, indicated by legend colours.
Fig 2.
Graphical user interface (GUI) of the R shiny app (manuscript in preparation).
Displayed here is the Survival Analysis tab showing the DSS based on CNA Quartiles in luminal cases. Results from the corresponding log-rank test are displayed in the bottom box.
Fig 3.
KM plots for OS and DSS for METABRIC luminal breast cancer patients in each CNA Quartile.
Kaplan Meier plots and risk tables for luminal breast cancer survival. Overall Survival (OS), Fig (A), and Disease Specific Survival (DSS), Fig (B), for METABRIC luminal breast cancer patients in each CNA Quartile. The p-value associated with the log-rank test and a risk table displaying the number of patients at risk at each time interval is displayed.
Table 1.
Final multivariable Cox PH model with selected clinical variables, CNA Quartiles and interactions.
Fig 4.
Adjusted survival curves for estimated CNA Quartile effects within each luminal PAM50 subtype.
Adjusted survival curves for estimated CNA Quartile effects for METABRIC luminal A, Fig (A) and luminal B, Fig (B) breast cancer patients. Survival curves represent the estimated effect of CNA Quartiles, by plotting the predicted survival curves for luminal A and luminal B patients for each CNA Quartile, having adjusted for the effects of other covariates in the multivariable Cox model, where other covariates are fixed at the median/mode values of those variables.
Fig 5.
Recursive partitioning survival tree utilising the six significant clinical variables and CNA Score.
Fig 6.
CNA Score distribution in gene expression quantiles of Tishchenko et al [13] for ordinary luminal A cases.
CNA Quartile thresholds from Fig 1 indicated across violin area. Outliers were removed.
Table 2.
Two-way table of patient counts in CNA Quartiles and gene expression quantiles of Tishchenko et al [13] for ordinary luminal A cases.