There are a lot of variations from the "standard" depending on champion and situation. One specific example is Thresh who runs ad marks armor / hp seals mr glyphs and armor quints, with the seals and glyphs swapping out of scaling ones depending on how damage heavy the lane is and how the lane damage is split between physical and magic damage
Greater Mark of Armor penetration
Not sure if I missed any, and all these runes are my personal preference. Others might have other choices though.