dataOvarian {joint.Cox}

Survival data of 1003 ovarian cancer patients from 4 independent studies.

Description

The data consist of 1003 surgically treated ovarian cancer patients from four studies (N1=110, N2=58, N3=278, N4=557). Survival outcomes are given to study if the CXCL12 gene expression is a prognostic factor in ovarian cancer. The dataset was used in Emura et al. (2017), which is a subset of the curated ovarian data of Ganzfried et al (2013). We prepared the dataset by using "patientselection.config" in "Curated ovarian data" around May 2015 in the analysis of Emura et al. (2017).

Usage

data("dataOvarian")

Format

A data frame with 1003 observations on the following 6 variables.

t.event

: time to event (days from surgery to tumour recurrence)

event

: event indicator (1=recurrence, 0=no recurrence)

t.death

: time to death (days from surgery to death due to any cause)

death

: death indicator (1=death, 0=alive)

group

: study ID; group=4, 8, 11, or 14; see the details below

CXCL12

: CXCL12 gene expression

Details

The data include individual-patient information on 1003 patients from 4 studies (group=4, 8, 11, and 14). The numbers 4, 8, 11 and 14 corresponds to the study IDs from the original data of Ganzfried et al. (2013). "group=4" corresponds to 110 Japanese patients from the study of Yoshihara et al. (2010) (GEO accession number: GSE17260). Other groupds are the studies of GSE30161 (58 patients), GSE9891 (278 patients), and TCGA (557 patients).

Source

Ganzfried BF et al. (2013), Curated ovarian data: clinically annotated data for the ovarian cancer transcriptome, Database, Article ID bat013, doi:10.1093/database/bat013.

References

Emura T, Nakatochi M, Murotani K, Rondeau V (2017), A joint frailty-copula model between tumour progression and death for meta-analysis, Stat Methods Med Res 26(6): 2649-66

Ganzfried BF et al. (2013), Curated ovarian data: clinically annotated data for the ovarian cancer transcriptome, Database, Article ID bat013, doi:10.1093/database/bat013.

Yoshihara K et al. (2010) Gene expression profile for predicting survival in advanced-stage serous ovarian cancer across two independent datasets. PLoS One 12;5(3):e9615

Examples

data(dataOvarian)
study4=dataOvarian[dataOvarian$group==4,] # extract one study
study4