R/PBC.R

In gmvjoint: Joint Models of Survival and Multivariate Longitudinal Data

#' Primary biliary cirrhosis data
#' 
#' Primary biliary cirrhosis (PBC) data. PBC is a chronic liver disease which affects the bile 
#' ducts of the liver, complications of which can ultimately lead to death. The longitudinal 
#' profile of numerous biomarkers were observed for 312 patients at the Mayo Clinic between 1974
#' and 1984  with patients assigned to either the active (D-penicillamine, n=154 (50.6%)) or 
#' placebo treatment arm (Murtaugh 1994). The data is publicly available in numerous places, 
#' including \code{joineRML} and \code{survival}. The presence of many longitudinal biomarkers 
#' of clinical interest as well as an event-time has lead to the PBC data becoming
#' widely used in literature. 
#' 
#' Nine longitudinal biomarkers exist with varying degrees of completeness in the data.
#' 
#' @usage data('PBC')
#' 
#' @format \code{data.frame} with 312 patients and 19 variables:
#'  \describe{
#' 
#'  \item{\code{id}}{Subject identifier}
#'  \item{\code{survtime}}{Survival time in years}
#'  \item{\code{drug}}{Binary indicator covariate: was the patient assigned active 
#'  (\code{drug=1}) or placebo?}
#'  \item{\code{sex}}{Binary indicator covariate: Takes value 1 if the subject is female, and zero
#'  if male.}
#'  \item{\code{time}}{Time of visit (0=baseline).}
#'  \item{\code{ascites}}{Binary \emph{response} variable. Takes value 1 if accumulation of fluid 
#'  in abdomen ("ascites") present.}
#'  \item{\code{hepatomegaly}}{Binary \emph{response} variable. Takes value 1 if enlarged liver 
#'  ("hepatomegaly") present.}
#'  \item{\code{spiders}}{Binary \emph{response} variable. Takes value 1 if malformed blood 
#'  vessels in skin ("hepatomegaly") present.}
#'  \item{\code{edema}}{Factor variable describing edema therapy, see 
#'  \code{\link[survival]{pbcseq}}.}
#'  \item{\code{serBilir}}{Serum bilirubin (measured in mg/dl).}
#'  \item{\code{serChol}}{Serum cholesterol (measured in mg/dl).}
#'  \item{\code{album}}{Serum albumin (measured in mg/dl).}
#'  \item{\code{alkaline}}{Alkaline phosphotase (measured in U/liter).}
#'  \item{\code{SGOT}}{Aspartate aminotransferase (measured in U/liter).}
#'  \item{\code{platelets}}{Platelet count per cubic ml/1000.}
#'  \item{\code{histologic}}{Histologic stage of disease, see \code{\link[survival]{pbcseq}}.}
#'  \item{\code{status}}{Survival status, \code{status=1} if the subject experienced mortality 
#'  and \code{=0} if censored.}
#'  \item{\code{age}}{Standardised age at baseline visit.}
#' 
#' } 
#'  
#' @keywords datasets
#' 
#' @source \code{\link[survival]{pbcseq}}
#' 
#' @references 
#' 
#' Murtaugh PA, Dickson ER, Van Dam GM, Malinchoc M, Grambsch PM, Langworthy AL, Gips CH. Primary 
#' biliary cirrhosis: Prediction of short-term survival based on repeated patient visits. 
#' \emph{Hepatology} 1994; \strong{20(1)}; 126-134. 
#' 
#' 
"PBC"