FFVII - influenced modern JRPG's strongly.
Final Fantasy - Started a very popular series of JRPGs.
DQ - See above.
ES: Arena - One of the originators of the open world design.
Rogue - Pretty much the original dungeon crawl, made its own genre (rogue likes)
System Shock - Early and influential WRPG/FPS - lead to games such as Bioshock
Ultima Online - popularlized MMOs
Everquest - Did the above but even moreso
World of Warcraft - See above
Might & Magic Series - The early games were quite influential
Ultima Series - See above
Pokemon - Most popular RPG of all time and practically created its own genre
@Guigr - He's talking about an earlier Neverwinter Nights. But not really hugely influential in my opinion, being the first to do something doesn't make it influential. I put Ultima Online in for my MMO instead.
