For instance, I recently read The Risen Empire by Scott Westerfeld, in which compound minds - essentially AIs comprising all the computer power of a planet - can behave like gods, and are treated as such by the mechanically-enhanced Rix people.
However, it stands to reason that computer programmers seeking to create artificial intelligence would not be deliberately trying to replace humanity as the dominant species. Logically there would be some form of control built into the little artificial lifeforms (like Asimov's Laws of Robotics, if you like).
My WIP starts along these lines:
ALFs are artificial lifeforms created within a strictly controlled virtual environment, and imbued with a limited degree of intelligence by their creators.
However, following a dispute over how to use the technology, the experiment is corupted when one of the programmers leaves the the project, having first infected the system with a virus.
In an attempt to salvage the project – and save countless artificial ‘lives’ – the creator of the project must enter his virtual world in order to isolate and remove the virus.
Unknown to him, however, his erstwhile colleague, as well as corrupting the project, has found a way to influence the actions of the artificial lives, and a battle to control the world has begun...
OK, so the second half sounds a bit cheesy, and the whole idea as presented here (before Elliot says it ;) ) may be a bit unsubtle. That, combined with the fact that it didn't finish it while cyberpunk was still young, and a major part of the story subsequently appeared in The Matrix, is why I've shifted it onto the backburner. I do have a couple of ideas to breathe new life into it, and may yet be able to make a sufficiently original story from it.
Alternatively, as Elliot suggested, maybe the Christian market is about ready for a Christian Matrix...