Neutrino oscillations are precision probes of new physics. Apart from neutrino masses and mixings, they are also sensitive to possible deviations of low-energy interactions between quarks and leptons from the Standard Model predictions. I will present a systematic description of such non-standard interactions (NSI) in oscillation experiments using an Effective Field Theory (EFT) approach. The relation with the traditional NSI formalism will be clarified. As a phenomenological example, I will discuss the application of this framework to short baseline reactor experiments such as Daya Bay. Bounds on operators of the Standard Model EFT will be extracted and compared with other probes.