Abstract: Systems and methods are presented for the diagnosis of middle ear pathological conditions based on spectral signatures. Preferred embodiments provide for detection of one or more analytes from the tympanic membrane. Devices use spectral measurements including spectral imaging to non-invasively identify middle ear pathological conditions including cholesteatoma and acute otitis media by providing real-time information of differentially expressed molecules. Devices and methods can also be used to non-invasively detect and quantify blood analytes from the tympanic membrane.