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Systems and methods for synthetic medical image generation in accordance with embodiments of the invention are illustrated. One embodiment includes a synthetic medical image generation system, including a processor, and a memory containing an image synthesis application, where the image synthesis application directs the processor to obtain source image data generated by at least one medical imaging device, where the source image data describes a functional medical image taken of a patient administered with a first imaging agent, and synthesize a predicted medical image of the patient that depicts the patient as if they were administered with a second imaging agent, wherein the first imaging agent and the second imaging agent are different imaging agents.