golub

golub.cl

golub.gnames


  Gene expression data (3051 genes and 38 tumor mRNA samples) from the
  leukemia microarray study of Golub et al. (1999). Pre-processing
  was done as described in Dudoit et al. (2002). The R code for pre-processing is available
in the file <a href="/link/..%2Fdoc%2Fgolub.R?package=multtest&version=2.28.0" data-mini-rdoc="multtest::../doc/golub.R">../doc/golub.R</a>.

datasets

Non-parametric bootstrap and permutation resampling-based
multiple testing procedures (including empirical Bayes methods)
for controlling the family-wise error rate (FWER), generalized
family-wise error rate (gFWER), tail probability of the
proportion of false positives (TPPFP), and false discovery rate
(FDR).  Several choices of bootstrap-based null distribution
are implemented (centered, centered and scaled,
quantile-transformed). Single-step and step-wise methods are
available. Tests based on a variety of t- and F-statistics
(including t-statistics based on regression parameters from
linear and survival models as well as those based on
correlation parameters) are included.  When probing hypotheses
with t-statistics, users may also select a potentially faster
null distribution which is multivariate normal with mean zero
and variance covariance matrix derived from the vector
influence function.  Results are reported in terms of adjusted
p-values, confidence regions and test statistic cutoffs. The
procedures are directly applicable to identifying
differentially expressed genes in DNA microarray experiments.

Katherine S Pollard

multtest

Resampling-based multiple hypothesis testing

golub function

Golub et al. (1999). Molecular classification of cancer: class
discovery and class prediction by gene expression
monitoring, <em>Science</em>, Vol. 286:531-537.
<a href="http://www-genome.wi.mit.edu/MPR/">http://www-genome.wi.mit.edu/MPR/</a>
.

Source


  Gene expression data (3051 genes and 38 tumor mRNA samples) from the
  leukemia microarray study of Golub et al. (1999). Pre-processing
  was done as described in Dudoit et al. (2002). The R code for pre-processing is available
in the file <a href = '../doc/golub.R'>../doc/golub.R</a>.

Golub et al. (1999). Molecular classification of cancer: class
discovery and class prediction by gene expression
monitoring, <em>Science</em>, Vol. 286:531-537.
<a href = 'http://www-genome.wi.mit.edu/MPR/'>http://www-genome.wi.mit.edu/MPR/</a>
.

golub: Gene expression dataset from Golub et al. (1999)

Description

Usage

Arguments

Value

Source

References