The present invention provides devices, systems, and methods for control of and communication with ventricular assist devices. In certain embodiments, the invention includes an implantable controller that is operatively programmed to direct physiological flow through a ventricular assist device that can be substantially synchronized to the cardiac cycle of the subject. In certain embodiments, the implantable controller is also communicatively connected to an external control unit, such that the implantable controller can transmit data to the external control unit, and instructions can be sent from the external control unit to the implantable controller. In certain embodiments, a system and method for secure communication between a remote device and the implanted ventricular assist device is provided.
