Dr. Weil, who normally encourages everything natural and good, isn't a fan of raw food diets and gives some pretty convincing evidence why we should cook our food.
http://www.drweil.com/drw/u/id/QAA357082
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However, I'm not a proponent of the raw foods diet. First of all, when you eat everything raw, you lose much of the best flavor, texture and appearance of food. More importantly, however, is the fact that many of the vitamins and minerals found in vegetables are less bioavailable when you eat these foods raw than when they're cooked. For example, you can get lycopene, the carotenoid pigment that protects against prostate cancer, only from cooked tomatoes, not from raw ones. The carotenoids in carrots are more bioavailable from cooked carrots than they are from raw ones.
Another disadvantage stems from the fact that many of the natural toxins in edible roots, seeds, stems and leaves are destroyed by cooking. Alfalfa sprouts contain canavanine, a natural toxin that can harm the immune system; button mushrooms contain natural carcinogens, and celery produces psoralens, compounds that sensitize the skin to the harmful effects of ultraviolet radiation in sunlight. All of these are broken down by simple cooking. Although our bodies have natural defenses against these toxins, a raw food diet can add to the toxic load we're already dealing with.
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The latest word on raw food diets comes from a new study which shows that vegetarians who eat only raw foods have abnormally low bone mass, a sign that they may be vulnerable to osteoporosis.