Can you Remove File Case Sensetivity?

I am trying to move to Turnkey LAMP from a Windows IIS Webserver.

But I have a problem with the Files Being Case Senstive. Most of the links will not work because of it.
Windows doesn't care about files and what letters you capitalize and linux does.

Is there away I can get around this by applying a filter or patch or anything in apache / Linux? And if yes how?

Hope someone can help.