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Minnesota Breast Cancer Study

Source: R/data.R
minnbreast.Rd

Data from the Minnesota Breast Cancer Family Study. This contains extended pedigrees from 426 families, each identified by a single proband in 1945-1952, with follow up for incident breast cancer.

Usage

data(minnbreast)

Format

A data frame with 28081 observations, one line per subject, on the following 14 variables.

  • id : Subject identifier

  • proband : If 1, this subject is one of the original 426 probands

  • fatherid : Identifier of the father, if the father is part of the data set; zero otherwise

  • motherid : Identifier of the mother, if the mother is part of the data set; zero otherwise

  • famid : Family identifier

  • endage : Age at last follow-up or incident cancer

  • cancer : 1 = breast cancer (females) or prostate cancer (males), 0 = censored

  • yob : Year of birth

  • education : Amount of education: 1-8 years, 9-12 years, high school graduate, vocational education beyond high school, some college but did not graduate, college graduate, post-graduate education, refused to answer on the questionnaire

  • marstat : Marital status: married, living with someone in a marriage-like relationship, separated or divorced, widowed, never married, refused to answer the questionaire

  • everpreg : Ever pregnant at the time of baseline survey

  • parity : Number of births

  • nbreast : Number of breast biopsies

  • sex : M or F

  • bcpc : Part of one of the families in the breast / prostate cancer substudy: 0 = no, 1 = yes. Note that subjects who were recruited to the overall study after the date of the BP substudy are coded as zero.

Details

The original study was conducted by Dr. Elving Anderson at the Dight Institute for Human Genetics at the University of Minnesota. From 1944 to 1952, 544 sequential breast cancer cases seen at the University Hospital were enrolled, and information gathered on parents, siblings, offspring, aunts / uncles, and grandparents with the goal of understanding possible familial aspects of brest cancer. In 1991 the study was resurrected by Dr Tom Sellers.

Of the original 544 he excluded 58 prevalent cases, along with another 19 who had less than 2 living relatives at the time of Dr Anderson's survey. Of the remaining 462 families 10 had no living members, 23 could not be located and 8 refused, leaving 426 families on whom updated pedigrees were obtained.

This gave a study with 13351 males and 12699 females (5183 marry-ins). Primary questions were the relationship of early life exposures, breast density, and pharmacogenomics on incident breast cancer risk. For a subset of the families data was gathered on prostate cancer risk for male subjects via questionnaires sent to men over 40. Other than this, data items other than parentage are limited to the female subjects. In 2003 a second phase of the study was instituted. The pedigrees were further extended to the numbers found in this data set, and further data gathered by questionnaire.

References

Epidemiologic and genetic follow-up study of 544 Minnesota breast cancer families: design and methods. Sellers TA, Anderson VE, Potter JD, Bartow SA, Chen PL, Everson L, King RA, Kuni CC, Kushi LH, McGovern PG, et al. Genetic Epidemiology, 1995; 12(4):417-29.

Evaluation of familial clustering of breast and prostate cancer in the Minnesota Breast Cancer Family Study. Grabrick DM, Cerhan JR, Vierkant RA, Therneau TM, Cheville JC, Tindall DJ, Sellers TA. Cancer Detect Prev. 2003; 27(1):30-6.

Risk of breast cancer with oral contraceptive use in women with a family history of breast cancer. Grabrick DM, Hartmann LC, Cerhan JR, Vierkant RA, Therneau TM, Vachon CM, Olson JE, Couch FJ, Anderson KE, Pankratz VS, Sellers TA. JAMA. 2000; 284(14):1791-8.

Examples

data(minnbreast)
breastped <- Pedigree(minnbreast,
    cols_ren_ped = list(
        "indId" = "id", "fatherId" = "fatherid",
        "motherId" = "motherid", "gender" = "sex", "family" = "famid"
    ), missid = "0", col_aff = "cancer"
)
summary(breastped)
#> Pedigree object with 
#> [1] "Ped object with 28081 individuals and 22 metadata columns"
#> [1] "Rel object with 0 relationshipswith 0 MZ twin, 0 DZ twin, 0 UZ twin, 0 Spouse"
scales(breastped)
#> An object of class "Scales"
#> Slot "fill":
#>   order column_values column_mods mods            labels affected  fill density
#> 1     1        cancer cancer_mods    0 Healthy <= to 0.5    FALSE white      NA
#> 2     1        cancer cancer_mods    1 Affected > to 0.5     TRUE   red      NA
#> 3     1        cancer cancer_mods   NA              <NA>       NA  grey      NA
#>   angle
#> 1    NA
#> 2    NA
#> 3    NA
#> 
#> Slot "border":
#>   column_values column_mods mods        labels border
#> 1         avail  avail_mods   NA            NA   grey
#> 2         avail  avail_mods    1     Available  green
#> 3         avail  avail_mods    0 Non Available  black
#> 
#plot family 8, proband is solid, slash for cancers
if (interactive()) {
    plot(breastped[famid(ped(breastped)) == "8"], aff_mark = TRUE)
}