We compare four variants of the reference design for microarray experiments in terms of their relative efficiency. A common reference sample across arrays is the most extensively used variation in practice, but independent samples from a reference group have also been considered in previous...

There have been various attempts to reconstruct gene regulatory networks from microarray expression data in the past. However, owing to the limited amount of independent experimental conditions and noise inherent in the measurements, the results have been rather modest so far. For this reason it...

Microarray experiments produce expression measurements for thousands of genes simultaneously, though usually for a small number of RNA samples. The most common problem is the identification of genes that are differentially expressed between different groups of samples or biological conditions....

As technology for microarray analysis becomes widespread, it is becoming increasingly important to be able to compare and combine the results of experiments that explore the same scientific question. In this article, we present a rank-aggregation approach for combining results from several...

Microarray studies often need to simultaneously examine thousands of genes to determine which are differentially expressed. One main challenge in those studies is to find suitable multiple testing procedures that provide accurate control of the error rates of interest and meanwhile are most...