Scientific journals and conferences usually favor LaTeX
for paper submission, while geeky conferences and publishers prefer DocBook
. Having used both (for instance, this Perl for the hurried (in Spanish)
was written in DocBook, while I use LaTeX for all papers.
Bibliography handling is quite easy in LaTeX, and rendering tools are part of the distro. The main problem I find with DocBook is that there's a wide array of rendering tools, to the point that the result in different platforms can vary wildly in quality; in fact, the DocBook spec only includes rendering hints. Its main advantage, on the other hand, is the semantic markup, which, to a point, is also possible in LaTeX, but not as completely as in DocBook.
In any case, if I had to write a new paper, I'd use LaTeX; if I had to write a new tutorial, I'd go for DocBook.