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The nanoparticle agent, combined with a targeting factor reacting with lesions, enables specific CT imaging. Thus, the identification of the nanoparticle agents has the potential to improve clinical diagnosis. Thanks to the energy sensitivity of the photon-counting detector (PCD), it can exploit the K-edge of the nanoparticle agents in the clinical x-ray energy range to identify the agents. In this paper, we propose a novel data-driven approach for nanoparticle agent identification using the PCD. We generate two sets of training data consisting of P