how to rank gene using information gain??

Question

how gene ranking is done for microarray data using information gain and chi-square statistics ?? Please illustrate with a simple example..

Answer 1

You could use the open source machine learning software Weka. Load your dataset and go to "Select attribute" tab. Use the following attributes evaluators:

ChiSquaredAttributeEval : Evaluates the worth of an attribute by computing the value of the chi-squared statistic with respect to the class.

InfoGainAttributeEval : Evaluates the worth of an attribute by measuring the information gain with respect to the class.

..using Ranker in the "Search Method" . That way the attributes are ranked by their individual evaluations

Answer 2

I don't exactly understand your question, but a very successful package for analyzing microarray data can be found here:

BioConductor

This is a software project that has a variety of different modules for reading data from microarrays and performing statistical analysis. This is very useful, because the file formats for microarray data are constantly changing as the technology develops, and the algorithms for analyzing microarray data have advanced significantly as well.