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EndNote is a good piece of software for mining book data. The question is what kind of parameters you are going to use.
The katakana transliteration is a remnant of Meiji so it kind of depends on what kind of books you are going to put in. Also, this transliteration is what is used in academic writing to show that it comes from katakana, if the books are of the vernacular kind you probably don't need to pay attention to it.
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