The Legend of Zelda and Super Mario are my top 2 (in this context I think of Super Mario purely as the platform games). Can't really pick between them.
After that it's Yoshi - you just can't top Yoshi's Island and a lot of the other games are good as well. I've a lot of love for Donkey Kong too (particularly Rare's DKC trilogy). Also a shout out to the Hotel Dusk series - two fantastic games, and I think Nintendo owns the IP.