As Guest Jennifer Bynum Green mentioned on 29 Jan 10, the song appears to be based on what Jesus said to the persecuted Christians of Pergamum:

I know where you dwell, where Satan's throne is. Yet you hold fast my name, and you did not deny my faith even in the days of Antipas my faithful witness, who was killed among you, where Satan dwells... He who has an ear, let him hear what the Spirit says to the churches. To the one who conquers I will give some of the hidden manna, and I will give him a white stone, with a new name written on the stone that no one knows except the one who receives it.
(Revelation 2:13,17)

Kent