The brain stem sits at the base of the brain and controls vital functions like breathing, heart rate, and blood pressure. It has three main parts - the midbrain, pons, and medulla oblongata. The midbrain controls vision and hearing, the pons helps with sleep and attention, and the medulla controls automatic functions like breathing and digestion. Injuries to the brain stem can impact functions like breathing, swallowing, balance, and more. The document describes two cases - a woman who became quadriplegic at age 13 from a brain stem injury and a man who was injured in a car accident and had limited mobility until receiving stem cell treatment.