We reported a simple method to pattern quantum dots, CdSe/ZnS, on selectively functionalized surface. This selective patterning of the quantum dots solution can be understood by considering the difference in affinity owing to different chemical functionality between the surface charge of quantum dots and transferred polyelectrolyte. Thus the quantum dots can be easily deposited on desired surface by simple dipping method. And the patterned shape and size can be freely controlled by polymer transfer technique according to the variation of used micromold.