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As silkiechicken already explained, vaccines work by exposing you to a low dose of the virus (either live or dead). This triggers your body to produce its own natural antibodies to it without enough exposure to the virus to make you as ill as you would be with full exposure to the live virus.
One of my friends is a chiropractor, and we had a conversation this summer about this very topic. We weren't able to get very in depth, and I need to research much more, but I remember something she said about the immune system. There are 2 kinds of immune responses (that we know of) based on the body's T-helper cells, the ones that fight infection. One kind is the result of natural immunity, or that which we acquire by contracting an illness and healing. Another kind is that provided by vaccines, which usually doesn't prove lasting (thus the need for boosters.)
The thing my friend told me that really intrigued me was the way the human body reacts to these different types of immune response. The response created by a vaccine puts the body into a state of "hyper-alert" whereas the natural immune response does not. The hyper-alert state wears down the body and it's natural defenses. Following the recommended schedule, a child receives somewhere around 36 doses of vaccines by age 5, I believe. It makes sense, then, that so many people have poor immune systems despite all the vaccines readily given.