The following tutorial will guide a user through the necessary steps to create Oligo FISH probes.
Let's begin with a genomic region on chromosome 11 that we have identified as possibly being amplified in Autism.
We will design TOPs (Tiling oligonucleotide probes) for FISH analysis of a 100kb region to determine if a gene (MUC2) in this region is amplified. MUC2 is located on Chromosome 11 in the UCSC human genome (May,2004 Freeze - HG17).
The coordinates are:
Chromosome 11 : 1,000,000 - 1,100,000 bp
We begin by starting PROBER. Double clicking on the Prober.exe icon (in C:\PROBER or from your desktop) to launch the main application. The software loads a splash screen and then enters the main interface.