Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: The Shrinkage Variance Hotelling $T^2$ Test for Genomic Profiling
  Studies   Designed gene expression micro-array experiments, consisting of several
treatment levels with a number of replicates per level, are analyzed by
applying simple tests for group differences at the per gene level. The gene
level statistics are sorted and a criterion for selecting important genes which
takes into account multiplicity is applied. A caveat arises in that true
signals (genes truly over or under expressed) are "competing" with fairly large
type I error signals. False positives near the top of a sorted list can occur
when genes having very small fold-change are compensated by small enough
variance to yield a large test statistic. One of the first attempts around this
caveat as the development of "significance analysis of micro-arrays (SAM)",
which used a modified t-type statistic thresholded against its permutation
distribution. The key innovation of the modified t-statistic was the addition
of a constant to the per gene standard errors in order to stabilize the
coefficient of variation of the resulting test statistic. Since then, several
authors have proposed the use of shrinkage variance estimators in conjunction
with t-type, and more generally, ANOVA type tests at the gene level. Our new
approach proposes the use of a shrinkage variance Hotelling T-squared statistic
in which the per gene sample covariance matrix is replaced by a shrinkage
estimate borrowing strength from across all genes. It is demonstrated that the
new statistic retains the F-distribution under the null, with added degrees of
freedom in the denominator. Advantages of this class of tests are (i)
flexibility in that a whole family of hypothesis tests is possible (ii) the
gains of the above-mentioned earlier innovations are enjoyed more fully. This
paper summarizes our results and presents a simulation study benchmarking the
new statistic against another recently proposed statistic.

31
The categories of this paper are: ao-sci
15
The categories of this paper are: nucl-ex
28
The categories of this paper are: alg-geom
20
The categories of this paper are: acc-phys
26
The categories of this paper are: bayes-an
21
The categories of this paper are: adap-org
9
The categories of this paper are: nlin
13
The categories of this paper are: quant-ph
25
The categories of this paper are: patt-sol
24
The categories of this paper are: dg-ga
33
The categories of this paper are: plasm-ph
4
The categories of this paper are: cond-mat
29
The categories of this paper are: funct-an
11
The categories of this paper are: hep-lat
1
The categories of this paper are: cs
7
The categories of this paper are: hep-th