In relation to some of the vague mysticism, traditionalism, and sometimes even outright (theistic?) hostility towards 'atheists' that occurs around here - one of the main charges against their opponents is the arrogance/hubris/gall of science.
A very religious charge, interestingly.
"Scientists think they know everything" is the basic line. This is, possibly, the biggest straw man, and illustration of lack of familiarity of subject matter at hand, in history.
I would like to call my first witness to the stand:http://www.youtube.com/watch?v=cdWj8fXHQLg
A a collective, there is a supreme humility towards reality in the physical sciences. Acknowledgement of doubt, and willingness to sacrifice time, riches, women and 'earthly' pleasures (has anyone attempted a PhD?).
This stands in contrast to movements and individuals throughout history who claim to be 'the voice of god', to have 'special access to the truth', and to characterize the nature of reality without ever having to wade into territory that is psychologically unpleasant or threatening. It is no surprise that religious ontology usually comes with an upshot for the individual - whether this be reincarnation, relaxation, a sense of 'unity', inner peace, disillusion of the ego, individual rights, equality etc.