I wrote a simple module for plotting array data either by log2 vs the product of the intensities, or by log10 of the intensities. The result is an image map with significant points highlighted.
Here is an example of the AMAD interface.
Here is an example of the plot module: cbk1 delete vs wt
The plot module is a simple Perl script that looks at the arrays currently stored in AMAD, and makes an x,y plot with an imagemap and links to a database.