Numerical analysis of flow phenomena and wall shear stresses in the human carotid artery bifurcation has been carried out using a three-dimensional geometrical model. The primary aim of this study is the detailed discussion of non-Newtonian flow velocity and wall shear stress during the pulse cycle. A comparison of non-Newtonian and Newtonian results is also presented. The applied non-Newtonian behavior of blood is based on measured dynamic viscosity. In the foreground of discussion are the flow characteristics in the carotid sinus. The investigation shows complex flow patterns especially in the carotid sinus where flow separation occurs at the outer wall throughout the systolic deceleration phase. The changing sign of the velocity near the outer sinus wall results in oscillating shear stress during the pulse cycle. At the outer wall of the sinus at maximum diameter level the shear stress ranges from -1.92 N/m2 to 1.22 N/m2 with a time-averaged value of 0.04 N/m2. At the inner wall of the sinus at maximum diameter level the shear stress range is from 1.16 N/m2 to 4.18 N/m2 with a mean of 1.97 N/m2. The comparison of non-Newtonian and Newtonian results indicates unchanged flow phenomena and rather minor differences in the basic flow characteristics.