In this study, an in vitro blood-brain barrier model was developed using murine brain endothelioma cells (b.End3 cells). By comparing the permeability of FITC-Dextran at increasing exposure times in serum-free medium to such values in the literature, we confirm that the blood-brain barrier model was successfully established. After such confirmation, the permeability of five ferrofluid (FF) nanoparticle samples, GGB (ferrofluid synthesized using glycine, glutamic acid and BSA), GGC (glycine, glutamic acid and collagen), GGP (glycine, glutamic acid and PVA), BPC (BSA, PEG and collagen) and CPB (collagen, PVA and BSA), was determined using this model. In addition, all the five FF samples were characterized by zeta potential to determine their charge as well as TEM and dynamic light scattering for determining their hydrodynamic diameter. Results showed that FF coated with collagen had better permeability to the blood-brain barrier than FF coated with glycine and glutamic acid based on an increase of 4.5% in permeability. Through such experiments, magnetic nanomaterials, such as ferrofluids, that are less permeable to the blood brain barrier can be used to decrease neural tissue toxicity and magnetic nanomaterials with more permeable to the blood-brain barrier can be used for brain drug delivery.