The present disclosure provides a base station, a communication system and a method thereof. The communication system includes three base stations adjacent to each other, and each base station serves at least one UE. The method includes: acquiring, by each base station, a channel matrix of a channel from the base station to an adjacent base station; calculating an interference alignment-based transmission precoding matrix for each base station based on the channel matrices of the channels between the base stations; and precoding, by each base station, data to be transmitted with the interference alignment-based transmission precoding matrix.