A controller for eliminating acoustic noise of a power converter includes a control unit and a gate signal generation unit. The control unit is used for detecting a frequency corresponding to a gate control signal in a burst mode of the power converter. When the frequency is greater than a predetermined frequency, the control unit increases a resistance of a compensation resistor coupled to a compensation pin of the power converter; and when the frequency is less than the predetermined frequency, the control unit decreases the resistance of the compensation resistor. The gate signal generation unit is coupled to the control unit for generating the gate control signal to a power switch of a primary side of the power converter according to the resistance of the compensation resistor. The power switch is turned on according to the gate control signal.