Just in general some that came to mind are FF7, Chrono Trigger, Pokemon at least for how far the franchise has come (up until gen 6 i guess), Devil May Cry, Halo, Legend of Zelda
DOOM literally rocked the fucking FPS genre so much that games that came out after DOOM (1993) were called Doom Clones. That and Doom II are literally like the most modded games ever made. The soundtrack, gameplay, and legacy rock. That and the original game has been ported to pretty much every device known to man with a compiler in it. check this out:
https://www.reddit.com/r/itrunsdoom/I've heard the Last of Us is really really good.
Tetris is like DOOM in being made for literally everything and I think it's the most sold game of all time, or second most sold. The Tetris Type A theme is iconic and everybody and their mother's dog knows about Tetris.
Minecraft as it's either up there or right behind tetris in sales. So many mods (Maybe more than Doom IDK). Probably the best sandbox game made ever IMO.
Not really a popular choice but IMO Devil May Cry 1's difficulty is probably one of the best designed in terms of how normal prepares you for hard and how hard mode prepares you for Dante Must Die. You can win every battle without ever taking a hit even on DMD because it's designed that way and also the soundtrack rocks.
Mortal Kombat is probably one of the best fighting games ever made (that or the Street Fighter series). Super Smash Bros. Melee is probably the best fighting game conceived in terms of the mastery and movement of that game. Some top players get near Starcraft II levels of APM (actions per minute). The way that game has been analyzed and optimized is incredible.
Sonic and Mario have it pretty tied for platforming (retro formula sonic eg. 1,2,3 & knuckles, Mania.)
For the horror genre I'd have to say Resident Evil. Very immersive.
The Metal Gear series seems to be highly received and is a pretty quality game series overall.
Consistently for speedruns Mario 64 is at the top most of the time on speedrun.com Arguably one of the most popular mario games and early 3d platformers.
According to wikipedia stuff like Symphony of the Night and Breath of the Wild are up there. I'll link the page so you can view it yourself.
Link:
https://en.wikipedia.org/wiki/List_of_video_games_considered_the_best