Christianity is indeed the focus of this very debate. That is simply because this debate is being discussed largely in the West, where Christianity has reigned supreme for millennia and where institutionalized Christianity has been such an integral part of society. The thinkers, philosophers, laymen, whomever, who are discussing this issue choose Christianity as their representative of religion not because they villify it more than "Eastern" religions, but because Christianity has been psychologically ingrained in them as the supreme religion of their society.Christianity does seem to be the focus of the science vs. religion debate. Islam and Judaism worship the same God as Christianity. I think that a lot of this may have to do with the perception of Eastern mysticism and religion. Somehow, society has given Eastern religions more credence than Christianity as if they are more natural or believeable whereas Christianity appears to be the bastard child of religions. You can see this anytime you turn on the television.
You have a point about the perception of "Eastern" religions as mystical, but this does not, I don't think, apply to Islam and Judaism as much as it applies to such religions as Taoism, Hinduism, Confucianism, Jainism, etc. What I strongly disagree with you about is your assertion that Judaism and Islam are viewed as more credible than Christianity in the West. This is in my opinion simply preposterous.
Firstly, the more than 2 billion Christians of the world - making it the largest single religion on Earth - would challenge this notion, especially the ones that are the dominant demographic groups in every Western power. Secondly, if I turn on the TV, I see not a championing of Islam or Judaism, but constant reporting on Islamist terrorism and conflicts within Israel. The perception of most Americans of the Muslim is that of "oil suppliers or potential terrorists." And on top of that, anti-Semitism, which has a millennia-old tradition in the West, still pervades our society.
Christianity has taken some very minor hits in the United States lately thanks to secularism, which I applaud, "war on Christmas" or not, but I would absolutely challenge the idea that Christianity is somehow viewed as less credible than Eastern religions.