Database designs for microarray data

cDNA Microarray Data Normalization

Database and R Interfacing for Annotated Microarray Data

A framework for expression data repositories (MAGE-ML compatiblity) emerged during the last years. Focus is now shifting towards the integration of expression databases into genomic and other bioinformatic database system as well as with statistical analysis platforms. We present an implementation of such a repository system at MIPS (http://mips.gsf.de/). An important requirement for this integ...

Optimal designs for 2-color microarray experiments.

Statisticians can play a crucial role in the design of gene expression studies to ensure the most effective allocation of available resources. This paper considers Pareto optimal designs for gene expression studies involving 2-color microarrays. Pareto optimality enables the recommendation of designs that are particularly efficient for the effects of most interest to biologists. This is relevan...

Optimal Factorial Designs for Cdna Microarray Experiments

We consider cDNA microarray experiments when the cell populations have a factorial structure, and investigate the problem of their optimal designing under a baseline parametrization where the objects of interest differ from those under the more common orthogonal parametrization. First, analytical results are given for the 2× 2 factorial. Since practical applications often involve a more complex...

Microarray Standard Data Set and Figures of Merit for Comparing Data Processing Methods and Experiment Designs

MOTIVATION There is a very large and growing level of effort toward improving the platforms, experiment designs, and data analysis methods for microarray expression profiling. Along with a growing richness in the approaches there is a growing confusion among most scientists as to how to make objective comparisons and choices between them for different applications. There is a need for a standar...