A radio frequency communication system and a noise isolation method applied to the radio frequency communication system are provided. The radio frequency communication system includes an antenna, an amplifier and a noise isolating unit. The amplifier is electrically connected to the antenna to amplify a common-mode signal transmitted by the antenna and outputs an amplified common-mode signal. The noise isolating unit is electrically connected to the amplifier to isolate the amplified common-mode signal. The noise isolating unit includes a first transformer and a second transformer. The noise isolating unit isolates the common-mode signal and transmits the differential-mode signal, which can effectively reduce the noise and improve a signal to noise ratio without affecting the original signal.