We report a general approach to bimodify gold nanoparticles (GNPs) with two different DNA strands via DNA template reaction. Two thioctic acid modified DNA strands, one at 5' end and one at 3' end, were attached to GNPs through bivalent thiol-gold bond. By sequence design, assemblies of 5 nm GNPs chains, 10 nm GNPs chains and alternative arrangement of S and 10 nm GNPs could be achieved. Gel electrophoresis, transmission electron microscope (TEM), UV-vis spectra were used to characterize the assemblies. It is believed that this new kind of bimodified GNPs with two different DNA strands at different ends would enrich the toolbox of DNA-GNP conjugates and provide diverse selectivity for further assembly.