nki70: The 70 gene signature of the Netherlands Cancer Institute for...

In penalized: L1 (Lasso and Fused Lasso) and L2 (Ridge) Penalized Estimation in GLMs and in the Cox Model

The 70 gene signature of the Netherlands Cancer Institute for prediction of metastasis-free survival, measured on 144 independent lymph node positive patients.

Description

A data.frame of 144 lymph node positive breast cancer patients on metastasis-free survival, 5 clinical risk factors, and gene expression measurements of 70 genes found to be prognostic for metastasis-free survival in an earlier study. The included variables are

time

Metastasis-free follow-up time (months).

event

Event indicator. 1 = metastasis or death; 0 = censored.

Diam

Diameter of the tumor (two levels).

N

Number of affected lymph nodes (two levels).

ER

Estrogen receptor status (two levels).

Grade

Grade of the tumor (three ordered levels).

Age

Patient age at diagnosis (years).

TSPYL5...C20orf46

Gene expression measurements of 70 prognostic genes.

Usage

data(nki70)

Format

A data.frame.

Note

The 70 gene signature was trained on lymph node negative patients only.

References

M.J. van de Vijver, Y.D. He, L.J. van 't Veer, H. Dai, A.A.M. Hart, D.W. Voskuil, G.J. Schreiber, J.L. Peterse, C. Roberts, M.J. Marton, M. Parrish, D. Atsma, A. Witteveen, A. Glas, L. Delahaye, T. van der Velde, H. Bartelink, S. Rodenhuis, E.T. Rutgers, S.H. Friend, and R. Bernards (2002). A gene-expression signature as a predictor of survival in breast cancer. New England Journal of Medicine 347 (25), 1999–2009.

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