In PDE and related analysis, there are a lot of good journal, among which the recent *Analysis and PDE* (by MSP, the publishers of *Geometry & Topology*) and the much older *Archive for Rational mechanics and Analysis* seem to stand on top. Also noticeable are *Annales de l'IHP - analyse non linéaire*, *Communication on PDE*, *SIAM journal on mathematical analysis*, and certainly other that I forget.