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When do we use PCR and when FISH?
•
Efficient PCR primer binding requires breakpoints that occur
only at restricted, highly consistent areas of the genome.
•
Breakpoints in antigen receptor rearrangement (
IGH
and
TCR
)
have appropriate properties, favouring PCR.
•
IGH-BCL2 breakpoints are variable but partly meet the
necessary criteria; CCND1-BCL2 breakpoints are even more
variable. MYC rearranges with several partner genes, often
unknown.
•
FISH probes are much larger and less ‘fussy’ than PCR primers