Gene Expression measures which of your 20,500 genes are currently active in your body. Genetic Variation describes the subtle differences between your 20,500 genes and your neighbor’s genes, which come in different flavors from your own. (Both gene expression and genetic variation can be measured using "gene chips").
Measuring gene expression can be misleading, becomes sometimes the effect of a gene comes long after it is switched off. Genes act as blueprints for miniature "protein factories" in our bodily cells. That’s what gene expression is. The resulting proteins ultimately build structures in the body, like organs and skin and muscles and brain tissue. But once the structures are built, the genes involved can then switch off (or go into occasional “maintenance mode”).
For example, the genes responsible for the eye’s development can mostly switch off after we're born, so many of the “eye development” genes are no longer expressed in adults, although the development of the eye is clearly genetic.
If you’re genetically pre-disposed to macular degeneration (an eye condition), you probably have different flavors of the eye development genes from your neighbor (who doesn’t suffer from the condition). That's gene variation. Whether the eye condition is caused by variants of your “development genes” which long ceased their activity or by “maintenance genes” is an open question. But if the former, you can treat the condition but never cure it.
So why aren’t all our genes dormant after we’ve reached adulthood? Aside from maintenance genes (if you cut your finger, you’d better hope these are still active, to repair the skin!), why do some of our genes still actively express their proteins?
First of all, genes don’t just act as blueprints for bodily structure. They build an elaborate signaling system in the body. For example, during pregnancy, hormones are used to signal the need for bodily changes. Hormones can also induce mood changes. So the genes that produce hormones must be able to switch on when needed, to produce more “signal”. (Neurotransmitters are another type of signaling mechanism in the brain.)
Hormones and neurotransmitters would have no effect unless “receptors” were placed strategically around the body and brain, to detect their signal and trigger a response. Hormone receptors are constructed and strategically positioned by the genes, although they are more permanent than the transient hormonal signal. Like soldiers on a battlefield awaiting the general’s order or command, the release of hormones into the bloodstream act as a signal, to activate the battle plans of the trained and ready army.
The brain has hormone receptors as well. So special modules in the brain remain ready, listening and vigilant. Once they detect the signal, they trigger a pre-established human behavior, e.g. maternal instinct. Pre-established human behaviors are really "brain modules" built by the genes (when we were young) to enact certain specific behaviors. Although those genes left behind brain modules that they constructed, are no longer active (i.e. no longer "expressed").
Much of your current gene expression is related to maintenance activities and fostering the body and brain’s elaborate signaling system. But neither your development (body and brain) nor your signaling system works the same as your neighbor’s, because you have gene variants. Your DNA differs from your neighbor’s by 1%, which doesn’t sound like a lot. But two keys that are 1% different still open different locks.