cbcrisk {CBCRisk} | R Documentation |
cbcrisk
is used to predict the chance of developing contralateral breast cancer for a woman whose current age (i.e., age at counseling) is within 18-89. This function gives the predictions starting at the current age (start.age
) and then in increments of a specified number of years (pred.year
) up to age 89.
cbcrisk(profile, start.age, pred.year, print.output)
profile |
a vector containing the values of 8 variables in the following order: Age at first breast cancer (BC) diagnosis, Anti-estrogen therapy, Family history of BC, High Risk Preneoplasia status, Breast density (BI-RADS), Estrogen Receptor (ER) status, First BC type and Age at first birth. The possible values (categories) of each variable are listed below in the Details section. |
start.age |
current age (i.e., age at couselling) of the woman. It must be equal to or greater than the age at first breast cancer diagnosis. |
pred.year |
increments (in years) at which the predictions will be made, starting at |
print.output |
a logical indicating whether the output should be printed on R console. Defaults to TRUE. Setting it to FALSE suppresses the output. |
The cbcrisk
function needs a vector of length 8 as a patient profile. The elements of the patient profile vector must consist of the numerical codes of the categories (noted in parentheses below) of the following risk factors:
Age at first BC diagnosis: <30 (1); 30-39 (2); 40+ (3).
Anti-estrogen therapy: Yes (1); No (2); Unknown (3).
1st degree family history of BC: Yes (1); No (2); Unknown (3).
High Risk Preneoplasia: Yes (1); No/Unknown (2).
Breast density: Extreme dense (1); Heterogeneously dense (2); Scattered (3); Almost Entirely fat (4); Unknown (5).
ER status: Negative (1); Positive (2); Unknown (3).
First BC type: Pure DCIS (1); Mixed (2); Pure Invasive (3).
Age at first birth: <30/Nulliparous (1); 30-39 (2); 40+ (3); Unknown (4).
cbcrisk
returns a list of three objects— the patient profile provided by the user, the current age of the woman provided by the user, and the contralateral breast cancer risks until age 89.
profile |
the patient profile containing information about the 8 variables discussed above. |
current.age |
current age of the woman. |
risk |
the risks of contralateral breast cancer up to age 89. |
Marzana Chowdhury
1. Chowdhury, M., Euhus, D., Onega, T., Biswas, S. and Choudhary, P. K. (2017) A model for individualized risk prediction of contralateral breast cancer, Breast Cancer Research and Treatment, 161, 153-160.
2. Chowdhury, M., Euhus, D., Banu, A., Umbricht, C., Biswas, S. and Choudhary, P. K. (2018) Validation of a Personalized Risk Prediction Model for Contralateral Breast Cancer, Breast Cancer Research and Treatment, 170, 415-423.
3. Chowdhury, M., Euhus, D., O'Donnell, M., Onega, T., Choudhary, P. K. and Biswas, S. (2018) Dose-Dependent Effect of Mammographic Breast Density on the Risk of Contralateral Breast Cancer, Breast Cancer Research and Treatment, 170, 143-148.
## The profile vector patient_profile= c(3, 2, 1, 2, 3, 2, 1, 2) ## install packages "survival" (if not already installed) ## install the "CBCRisk" package library(CBCRisk) cbcrisk(patient_profile, 55) #### risks at every 5 years (by default) starting at age 55 cbcrisk(patient_profile, 55, 10) ### risks at every 10 years starting at age 55