We study the dynamics of Bose-Einstein condensates in time-dependent microtraps for the purpose of understanding the influence of the mean field interaction on the performance of interferometers. We identify conditions where the non-linearity due to atom interactions increases the sensitivity of interferometers to a phase shift. This feature is connected with the adiabatic generation of a dark soliton. We analyze the robustness of this phenomenon with respect to thermal fluctuations, due to excited near fields in an electromagnetic surface trap.