Yes! Influenced by Ghost in the Shell, which is amazing, but also you're right to mention Dark City. Also, I would mention Akira, and even Metropolis, equally as important in my opinion.

I didn't know about Lain, I will check it out, it looks pretty cool, I think the concept of "Ghost In The Machine" was Descartes idea, and also in Arthur Khoestler book of the same name, and of course Gilbert Ryle.

As for the way you will feel about this "Matrix", I'd rather be fully honest with you, and I don't even think it's as good as the bad ones haha. It felt like a straight to DVD movie, really badly done!