Biochip-compatible packaging for a DNA monolithic opto-electronic biosensor is presented. The packaging involves coated opto-coupler chips, ceramic carriers, plastic fluidic modules, optical alignment, self-aligned under-fill gluing as well as potting encapsulation. All the steps were implemented without denaturing the bio-molecular probes and without degrading the optical quality of the transducers. Such a packaged optical microchip was successfully employed in SNP detection.