PaGE (Patterns from Gene Expression) is free downloadable software for microarray analisys. PaGE can be used to produce sets of differentially expressed genes with confidence measures attached. These lists are generated the False Discovery Rate method of controlling the false positives.

But PaGE is more than a differential expression analysis tool. PaGE is a tool to attach descriptive , dependable, and easily interpretable expression patterns to genes across multiple conditions, each represented by a set of replicated array experiments.

The input consists of (replicated) intensities from a collection of array experiments from two or more conditions (or from a collection of direct comparisons on 2-channel arrays). The output consists of patterns, one for each row identifier in the data file.

One condition is used as a reference to which the other types are compared. The length of a pattern equals the number of non-reference sample types. The symbols in the patterns are integers, where positive integers represent up-regulation as compared to the reference sample type and negative integers represent down-regulation.

The patterns are based on the false discovery rates for each position in the pattern, so that the number of positive and negative symbols that appear in each position of the pattern is as descriptive as the data variability allows.

The patterns generated are easily interpretable in that integers are used to represent different levels of up- or down-regulation as compared to the reference sample type.

To illustrate this, the following table gives an excerpt of data for four of the gene tags in a given of hybridization experiment and four sample types. There are three replicates for sample types G0 and G2 and two replicates for sample types G1 and G3. As they are these data are hard to peruse for information.

Requirements:
* Java

The license of this software is Free, you can free download and free use this calculator software.