Because the use of transgenic and gene-targeted models has increased in pop
ularity, the number of reports describing unpredictable phenotypic effects
caused by variation in the genetic background used to generate or propagate
these models has steadily increased. There are now many examples in which
animals containing the same exact genetic manipulation exhibit profoundly d
ifferent phenotypes when present on diverse genetic backgrounds, demonstrat
ing that genes unrelated, per se, to the ones being targeted can play a sig
nificant role in the observed phenotype. Herein, I will discuss (1) the sou
rce of genetic variability in mutant mouse models, (2) the appropriateness
of using inbred mice as controls, and (3) strategies to help minimize genet
ic variation between experimental and control mice.