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Introduction
After scanning the Array slides, we have the quantitative information about each fluorescent spot on every slide.
The quantitative information is part of what we need to perform statistical analyses on the experiment. The other
piece of information that we need is a link between the name/location of the antigens spotted on the slide and the
quantitative values that represent each of the antibody-antigen reactivity of the slide. The link is called a GenePix
Array List (GAL) file and this document describes how to create such a file.
Preliminaries
The GAL file is a text file with specific information about the location, size, and name of each antigen spot on the
slide. This file includes information that GenePix uses to create an array list. In addition, this file is necessary for
creating a grid of the Array (see Howto Grid Array Images.doc).
This document includes the minimum requirements for creating a GAL file for probing protein Arrays. I strongly
encourage the reader to review the additional literature provided below since this information will enhance and
complete one’s understanding of the entire process of analyzing Arrays.
http://www.axon.com/gn_GAL_Examples.html (an example GAL file)
http://www.axon.com/gn_GenePix_File_Formats.html (complete details of GAL format – it’s a must read!)
Making_GAL_Files.pdf (excellent description of how to set up a GAL file)
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print_YY_MM_DD_array_list_for_gal.xls
print_YY_MM_DD_array_list_for_gal.txt
Excel will complain about multiple sheets. Click OK. Excel will now complain about containing features that are
not compatible with Text. Click Yes.
print_YY_MM_DD_array_list_for_gal.gal