nki70

A <code><a rd-options="" href="/link/data.frame?package=penalized&version=0.9-52" data-mini-rdoc="penalized::data.frame">data.frame</a></code>
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<dl class="dl-horizontal">
 <dt>time</dt><dd>Metastasis-free follow-up time (months).</dd>
 <dt>event</dt><dd>Event indicator. 1 = metastasis or death; 0 = censored.</dd>
 <dt>Diam</dt><dd>Diameter of the tumor (two levels).</dd>
 <dt>N</dt><dd>Number of affected lymph nodes (two levels).</dd>
 <dt>ER</dt><dd>Estrogen receptor status (two levels).</dd>
 <dt>Grade</dt><dd>Grade of the tumor (three ordered levels).</dd>
 <dt>Age</dt><dd>Patient age at diagnosis (years).</dd>
 <dt>TSPYL5...C20orf46</dt><dd>Gene expression measurements of 70 prognostic genes.</dd>
 </dl>

datasets

Netherlands Cancer Institute 70 gene signature

Fitting possibly high dimensional penalized
regression models. The penalty structure can be any combination
of an L1 penalty (lasso and fused lasso), an L2 penalty (ridge) and a
positivity constraint on the regression coefficients. The
supported regression models are linear, logistic and Poisson
regression and the Cox Proportional Hazards model.
Cross-validation routines allow optimization of the tuning
parameters.

Jelle Goeman

penalized

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

Netherlands Cancer Institute 70 gene signature function

A <code><a rd-options="" href="/link/data.frame?package=penalized&version=0.9-52" data-mini-rdoc="penalized::data.frame">data.frame</a></code>.

Format

A <code><a rd-options='' href='data.frame'>data.frame</a></code>
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<dl class='dl-horizontal'>
 <dt>time</dt><dd>Metastasis-free follow-up time (months).</dd>
 <dt>event</dt><dd>Event indicator. 1 = metastasis or death; 0 = censored.</dd>
 <dt>Diam</dt><dd>Diameter of the tumor (two levels).</dd>
 <dt>N</dt><dd>Number of affected lymph nodes (two levels).</dd>
 <dt>ER</dt><dd>Estrogen receptor status (two levels).</dd>
 <dt>Grade</dt><dd>Grade of the tumor (three ordered levels).</dd>
 <dt>Age</dt><dd>Patient age at diagnosis (years).</dd>
 <dt>TSPYL5...C20orf46</dt><dd>Gene expression measurements of 70 prognostic genes.</dd>
 </dl>

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

A <code><a rd-options='' href='data.frame'>data.frame</a></code>.

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

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

Description

Usage

Arguments

Format

References