I had no such experiences at my college, UC Santa Cruz (well known for it's liberal immorality). However, I can't remember a single instance in which a professor railed against Christians. Students did, all the time, but there were also 3 thriving Christian groups on campus as well (that I knew of). In fact, the only time any of my science professors brought religion up was in my evolution class, and the professor acknowledged people might have issues with the concept, that he would be sensitive to their beliefs, but that he was going to present the theory as it has been developed and corroborated by modern science. The only time religion came up in other classes it was in context (cultural anthropology).
We have many intuitions in our life and the point is that many of these intuitions are wrong. The question is, are we going to test those intuitions?
-Dan Ariely