Area under the ROC Curve.

<p>NC classifier trained as a function of the number of samples in a -fold CV setting for each of the four datasets. We show here the accuracy for 100-gene signatures.</p

Stability for a signature of size 100.

<p>Average and standard errors are obtained over the four datasets. a) Soft-perturbation setting. b) Hard-perturbation setting. c) Between-datasets setting.</p

AUC (between-datasets setting).

<p>AUC obtained with Nearest Centroids when a signature is learnt from one dataset and tested by 10-fold cross-validation on the three remaining datasets. Standard error is shown within parentheses. For each training dataset, we highlighted the best performance. The <i>Type</i> column refers to the use of feature selection run a single time (S) or through ensemble feature selection, either with the mean (E-M), exponential (E-E) or stability selection (E-S) procedure to aggregate lists.</p

Stability of different methods in the between-dataset setting, as a function of the size of the signature.

<p>Stability of different methods in the between-dataset setting, as a function of the size of the signature.</p

Accuracy/stability trade-off.

<p>Accuracy versus stability for each method in the between-datasets setting. We show here the average results over the four datasets.</p

Data.

<p>The four breast cancer datasets used in this study.</p

Bias in the selection through entropy and Bhattacharyya distance.

<p>Estimated cumulative distribution functions (ECDF) of the first ten genes selected by four methods on GSE1456. They are compared to the ECDF of randomly chosen background genes.</p

Estimated distribution of the first gene selected by entropy and Bhattacharyya distance.

<p>Estimated distribution of the first gene selected by entropy and Bhattacharyya distance.</p

GO stability for a signature of size 100 in the soft-perturbation setting.

<p>Average and standard errors are obtained over the four datasets. A) Soft-perturbation setting. B) Hard-perturbation setting. C) Between-datasets setting.</p

Area under the ROC curve.

<p>Signature of size in a -fold CV setting and averaged over the four datasets.</p