I agree with the question by MysticalDreams, but if you mean that sometimes the updates "fix" things that are related to some phones but not yours, that's OK. As long as the "fix" doesn't "break it" for your phone. There is no way that I know of to install an app from the Play Store that is not compatible with your phone, as the system knows what phone you are sending it to and all apps have to register what phones they are compatible with.
Also, MysticalDream's valid and helpful suggestion of WIFI only for updates will curtail your Data Usage by limiting updates to only WIFI, which may eliminate any concern you have for auto-updating.
But to answer your underlying question, no there is no way to turn off notifications on just certain apps, and hiding them does nothing to prevent them from notifying, AFAIK. It's all or nothing, however the solution put forth by Sydman is not only a good one, but I plan on implementing it right now! Thanks, Sydman! This is great...some people come here looking for help, others to give help, and some for both reasons, but it often winds up that the help-giver becomes the help-receiver unknowingly! That's what makes an open forum so powerful! Power to the people!! :hail: