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In this work, we introduce a hybrid atomic-force/near-field scanning microwave microscope, exploiting the tomographic capabilities of the microwave microscopy to explore structures of relevant interest, namely, samples involving both biological and non-biological materials at the same time. In particular, we show imaging of C2C12 muscle cells grown in the presence of bundles of multi-walled carbon nanotubes: here, the microwave microscopy, by virtue of its tomographic potentiality, highlights how cells incorporate some nanotubes in their fibers.