If you're trying to play a campaign, some of them are alignment locked to Protectorate Factions (Forglar Swamp, Ironfist Stronghold, K'thir Forest, Savage Tundra) & Wrath Factions (Forsaken Wastes, Shattered Peaks, Sundered Lands, Underdepths)
Temple of Brutality is the only banned UD rune that I know of. That said, it's only banned in ranked play, so it should still be usable in campaigns. If you don't have Temple in your deck, then see the above post for help.