This article introduces a novel method to estimate oxygen saturation of the internal jugular vein blood (SjvO2) by using Near Infrared spectroscopy (NIRS). The different positions of patients can affect the cross-sectional area (CSA) of the internal jugular vein (IJV), in other words, it causes the sectional change of the IJV blood volume. When lying position of patients, the CSA is larger than that keeping upper body 80 degree, and the CSA can compute quantitatively by the use of ultrasound and digital image processing methods. The entire method consist of constructing different position of patient (upper body rotation 0 and 80 degree), comparing the light absorption changes. SjvO2 has been determined from light absorption measurements in two wavelength, before and after the position changes. The method has been applied to the vertical area over the IJV of 11 patients who were placed a central venous catheter into a large vein in the neck for medical uses, using wavelength of 735 and 850 nm. At last, comparing the SjvO2NIRS which measured by NIRS noninvasively with SjvO2IJVBG which was quantified using a whole blood gas analyzer, we found there were some certain relativity. The results were influenced by vascular depth greatly.