Angiogenesis, or neovascularization, is known to play an important role in the neoplastic progression leading to metastasis. CD31 or Factor VIII-related antigen (F VIII RAg) immunohistochemistry (IHC), is widely used in experimental studies quantifing tumor neovascularization in immunocompromised animal models implanted with transformed human cell lines. Quantification, however, can be affected extensively by variations in the methodology used to measure vascularization including antibody selection, pretreatment with antigen retrieval and evaluation techniques. To examine this further, we examined the microvessel density and the intensity of microvascular staining among five different human tumor xenografts and a mouse syngeneic tumor using anti-CD31 and F VIII RAg IHC staining. Different antigen retrieval methods also were evaluated. Maximal retrieval of CD31 was achieved using 0.5 M Tris (pH 10) buffer, while maximum retrieval of F VIII RAg was achieved using 0.05% pepsin treatment of tissue sections. For each optimized retrieval condition, compared to F VIII RAg, anti-CD31 highlighted small vessels better. Furthermore, the microvessel density of CD31 was significantly greater than that of F VIII RAg decorated vessels (p < 0.001). The choice of antibody and antigen retrieval method has a significant affect on immunohistochemical findings when studying angiogenesis. One also must use caution when comparing studies in the literature that use different techniques and reagents.