We present the rapid fabrication of custom protein micro-arrays, in less than 35 minutes, on the surface of immobilized beads using microchannel-guided flows driven by a single syringe pump. The commercially available beads provide robust micro-array surfaces to graft capture antibodies. The different target antigens are subsequently specifically bound and analysed in parallel in different microfluidic channels on a single micro-array chip. The presence of target molecules is detected as a fluorescent signal by realizing a sandwich immunocomplex on the specific capture antibody spot of the micro-array. With this technique, multiple proteins can be easily detected in a single channel.