Abstract. We present a methodology to achieve low latency homomorphic operations on approximations to complex numbers, by encoding a complex number as an evaluation of a polynomial at a root of unity. We then use this encoding to evaluate a Discrete Fourier Transform (DFT) on data which has been encrypted using a Somewhat Homomorphic Encryption (SHE) scheme, with up to three orders of magnitude improvement in latency over previous methods. We are also able to deal with much larger input sizes than previous methods. Due to the fact that the entire DFT algorithm is an algebraic operation over the underlying ring of the SHE scheme (for a suitably chosen ring), our method for the DFT utilizes exact arithmetic over the complex numbers, as opposed to approximations.