Your brain cells reset their sodium & potassium ratios when the brain is in Theta state. The sodium & potassium levels are involved in osmosis which is the chemical process that transports chemicals into and out of your brain cells. After an extended period in the Beta state the ratio between potassium and sodium is out of balance. This the main cause of what is known as "mental fatigue". A brief period in Theta (about 5 - 15min) can restore the ratio to normal resulting in mental refreshment.  
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Recent research at the University of Lisbon finally uncovered the reason for the 350 year-old mystery, finding that the resonance of sound is the mechanism for entrainment of swinging pendulums and ticking clocks, and it seems likely that the energy transferred by sound is also responsible for other observations of entrainment, including brainwave entrainment.

Entrainment is a term originally derived from complex systems theory, and denotes the way that two or more independent, autonomous oscillators with differing rhythms or frequencies, when situated in a context and at a proximity where they can interact for long enough, influence each other mutually, to a degree dependent on coupling force, such that they adjust until both oscillate with the same frequency. Examples include the mechanical entrainment or cyclic synchronization of two electric clothes dryers placed in close proximity, and the biological entrainment evident in the synchronized illumination of fireflies.[13]
Binaural beats are dual tones, each one slightly different from the other. You hear one tone in each ear and your brain responds by creating a tone to reconcile the difference between the two. Isochronic tones are single tones. The variation in pattern here is brought in by interspersing silence between the sound, which means that your isochronic tone does not have a continuous sound but tones broken up by silences. Studies show that isochronic tones have far more contrast than binaural beats because of the silence and sound pattern. This sharp contrast evokes a faster impact from your brain, prompting it to match the frequency more quickly. Also, isochronic tones are found to be stronger stimulants to the brain.
Your brain operates at certain levels of activity – the normal waking, active Beta, the meditative Alpha, the asleep-and-dreaming or deep meditative Theta, and the deep sleep/unconscious Delta. Beta is characterized by one thing we all want to get away from – stress.But that brainwave state has its place. It’s the action mode, and that’s the way it should be! If we’re not alert when we’re awake, bad things can happen, right?
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Binaural beats are pretty simple. Basically, you take two frequencies that are similar and play each one through it’s own stereo headphone. The two competing frequencies will work together in your mind to produce a pulsing. That pulse will be a certain frequency that corresponds to a number in hertz that is linked to what your brain produces when you are in certain states of consciousness.
If brainwave entrainment leaves you with unwanted side-effects (see below) or discomfort, you’re probably encouraging a range of brainwaves that are already excessive in some area of your brain. The way around this is to get a brain map to see what your brain’s strengths and weaknesses are, and see what (if any) brainwaves could use some encouragement. 
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