For example, the live-action X-Men films:
Also, the live-action Batman films:
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-i.html (BATMAN (1989))
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-ii.html (BATMAN RETURNS)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part.html (BATMAN FOREVER)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-iv.html (BAMTAN FOREVER)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-v.html (BATMAN BEGINS)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-vi.html (THE DARK KNIGHT)
X-Men - no direct adaptations. General adaptation of the X-Men world and its characters, no specific story or events (although Logan's sacrifice to save Rogue is taken directly from a comic)
X2: X-Men United - God Loves, Man Kills, with elements of The Phoenix Saga and Wolverine: Weapon X
X-Men: The Last Stand - Dark Phoenix Saga and Gifted
X-Men Origins: Wolverine - Wolverine: Weapon X, Wolverine: Origin, and Team X (unsure of the name of the run)
X-Men: First Class - No specific story adapted, a general adaptation of the history between Xavier and Magneto. Was not based off the comic run of the same name
The Wolverine - Wolverine #'s 1-4 Japan story.
Also, the live-action Batman films:
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-i.html (BATMAN (1989))
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-ii.html (BATMAN RETURNS)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part.html (BATMAN FOREVER)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-iv.html (BAMTAN FOREVER)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-v.html (BATMAN BEGINS)
http://gothamalleys.blogspot.com/2011/08/comic-book-references-in-movi es-part-vi.html (THE DARK KNIGHT)