The story takes place in 19th century Europe, and revolves around John Watson. He is scouted by the government to become a secret agent. However, Watson lives in a world where "Frankensteins"—human corpses that are re-purposed with a false soul in order to use them as laborers—are used to improve industrial development.

Set in a future world. Japan has created a great medical technology that controls ethics, health, and social interaction to create a perfect world. Three young girls attempt to stand up to this by committing suicide, but it doesn't work. Years later, Tuan, one of the girls who attempted suicide must prevent a crisis that threatens this "perfect" world.

The war on terror exploded, literally, the day Sarajevo was destroyed by a homemade nuclear device. The leading democracies transformed into total surveillance states, and the developing world has drowned under a wave of genocides. The mysterious American John Paul seems to be behind the collapse of the world system, and it's up to intelligence agent Clavis Shepherd to track John Paul across the wreckage of civilizations and to find the true heart of darkness—a genocidal organ.