This thesis deals with continuous-time system identification by fractional models in the EIV context. Two classes of methods are developed : the first class is based on third-order statistics and the second one is based on fourth-order statistics. Firstly, all differentiation orders are known a priori and only the coefficients of the differential equation are estimated using the developed algorithms based on higher-order statistics. Then, they are extended to estimate both the fractional differential equation coefficients and the commensurate order. Simulation examples display the theoretical developments on system identification in the EIV context. A practical application for modeling heat transfer phenomena in an aluminium rod and for modeling an electronic real system have shown the efficiency of the developed methods.