One point that has stuck with me (and I forget who brought it up) was that eventually, no matter how scientific you are, the study of the universe yields very little. At some point, every scientist becomes a philosopher.
We (think we) know an incredible amount of information on how the universe was formed and the transcending affects thereafter on the world as we know it today. This is all based on what we know moments after creation. What we do not know, and will never know, is how we were created. That first cause that started everything.
The Pope John Paul II allegedly met with Stephan Hawkins and brought up a similar point.
Physicist touches upon God and science - Science- msnbc.com
I think it's important to take every scientific advancement for what it is, a potentially flawed discovery. How many things known as scientific fact are going to be overturned within the next twenty years? We humans are a fallible species...
Granted, I'm not saying we should be complete skeptics on every discovery made, or even that we should not base some of our ideals on these things. I'm simply saying we should be sympathetic to causes, especially religious ones, that may reflect conflicting ideals.