The electrostatic layer-by-layer (LbL) self-assembly of polyelectrolyte’s has shown applications in thin film coatings, micro patterning, nano-bioreactors and capsules for drug delivery. The film architecture can be precisely designed and controlled to nanometer scale precision with a range from 5 nm to a few microns. Both in vitro and in vivo studies indicate potential applications in biology, pharmaceutics, medicine, and other biomedical areas. This thesis work focused on the design and development of protocols to fabricate polyelectrolyte multi-layer patterns on a variety of substrates such as glass, metals and plastics such as acrylic and polycarbonate. The micro-scale polyelectrolyte patterns have applications in the creation of DNA, protein or cell based microarrays. This work also demonstrated the use of polyelectrolyte multi-layers in the enhancement of fluorescence signals from fluorophore-tagged molecules captured within the multi-layers. In-situ measurements using Fiber Bragg Gratings were carried out to study the kinetics of adsorption and desorption of polyelectrolytes participating in the layer buildup process under different process environmental conditions.