First, your choice has to absolutely work every time you pull the trigger. You should test, at the very minimum, 200 or more rounds of examples to insure that there are no failures of any kind. Some pistols like different bullet profiles and even loads.
There are lots of opinions on which round is best for personal protection. My personal choice for my Ruger P89 is Remington Golden Saber in 147gr JHP. It's heavier and slower, but the pics of bullet expansion I had seen convinced me that it is better than the Federal Hydra-Shok in 135gr. FWIW, a lot of the pics I had seen in testing showed that the Federal HS round did not expand anywhere near as well as the Golden Saber or Gold Dot bullets in most calibers.
There are others that should be good candidates including the Cor-Bon and Speer Gold Dots. One thing that you probably need to consider is missed shots. High velocity rounds can fly thru sheetrock and siding and can pass thru the neighbor's walls. That may not be a good thing to have happen.
Some folks believe that a shotgun is the best form of in-house protection. Less chance of misses going outside and if you hit a BG at the COM, he will be stopped.