Apparatus and methods are disclosed for mixing and self-cleaning elements in microfluidic systems based on electrothermally induced fluid flow. The apparatus and methods provide for the control of fluid flow in and between components in a microfluidic system to cause the removal of unwanted liquids and particulates or mixing of liquids. The geometry and position of electrodes is adjusted to generate a temperature gradient in the liquid, thereby causing a non-uniform distribution of dielectric properties within the liquid. The dielectric non-uniformity produces a body force and flow in the solution, which is controlled by element and electrode geometries, electrode placement, and the frequency and waveform of the applied voltage.