Some other examples not in the OP:

- A Dark Room http://blog.doublespeakgames.com/news/a-dark-room-goes-open-...

- Spelunky http://www.spelunkyworld.com/original.html

- MechCommander 2 (shared source, via Microsoft) http://www.neowin.net/news/microsoft-mechcommander-2-shared-...

- Asteroids (and many other Atari games) http://www.atarimuseum.com/videogames/consoles/7800/games/

- Cart Life http://www.spelunkyworld.com/original.html (perhaps not as commercially successful as the others...but won a huge indie game prize, and is a great work overall)