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There have been some great ones out there no doubt.
Yet the one that comes to mind with me is Rare and Nintendo.
In the 90's they teamed up for not only some of the best games on the Nintendo 64/Super Nintendo but some of the best games of all time.
Here's a small list of some of their best all time games.
Goldeneye - arguably the all time best and cleanest FPS of all time.
Perfect Dark - arguably topped the arguably all time best FPS
Donkey Kong Country Trilogy - one of the best platforming series of its time
Then of course Rare was bought out by Microsoft and they have been a shadow of their former selves since.