Nikon D3S has a 12.0MP Full frame (36 x 23.9 mm ) sized CMOS sensor and features Expeed processor. On the other hand, Sony A9 has a 24.0MP Full frame (35.6 x 23.8 mm ) sized BSI-CMOS sensor and features BIONZ X processor. Sony A9's sensor provides 12MP more than Nikon D3S's sensor, which gives a significant advantage in real life. You can print your images larger or crop more freely.
On the other hand, please keep in mind that Max sensor resolution is not the only determinant of resolving power. Factors such as the optical elements, low pass filter, pixel size and sensor technology also affects the final resolution of the captured image.
Another difference between these two cameras is that Sony A9's sensor lacks anti-alias (Low-Pass) filter. Removing anti-alias filter increases the sharpness and level of detail but at the same time, it increases the chance of moire occurring in certain scenes.
Below you can see the D3S and A9 sensor size comparison.
Nikon D3S and Sony A9 have almost the same sensor size so none of them has any significant advantage over other in providing control over depth of field when used with same focal length and aperture.