I've recently done a comparison of PID, Marathon and a Metroidvania game I noticed some minor similarties with called Powerslave. I aim to do one for System Shock as well, whose comparisons to PID & Marathon are a lot more noticable.
Part 1, Intro and DOS Build Engine version: http://forums.bungie.org/story/?read=74727
Part 2, Powerslave Exhumed and outro: http://forums.bungie.org/story/?read=74728
System Shock ones to come at some point. I'm waiting for the remake first.