In the Black Swan I noticed lo frequency tones used to anticipate tension. I noticed them because I was paying a lot of attention to the sound track. They are quite evident for some one "analyzing" the sound track but I don't think the average viewer would consciously understand their use or their presence..
Very low frequencies which are not perceptible by the ear can be felt through the body, but as Roger explains above, a play back system that can reproduce such frequencies is an issue. Cinema play back systems have always had a problem with the reproduction of low frequencies.
This link is not related with film but is about low frequency noise and its effect on people.
http://www.environmental-protection.org.uk/noise/environmental-noise/low-frequency-noise/