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tdido,
I am currently a doctoral student and was in the same boat as you a year ago and got some really valuable advice from this forum.
AFAIK, almost all readers run some form of Linux. You can look at the E-reader Matrix on the wiki to be sure which ones do.
Early this year, I bought the iLiad Book Edition but I find that it's certainly not ideal for reading 2-column articles unless you install the hacked version of ipdf known as 'column-mode' ipdf which allows you to read a column at a time and then move between columns in the right order. However, it doesn't always work and the small screen size doesn't help either.
If you can afford it, the iLiad DR1000S is probably going to be the best thing out there for reading PDFs since it has some nice features like being able to annotate PDFs, jump within a document using links etc. However, like the iLiad Book Edition, it has horrendous battery life and larger PDFs have been reported to suffer from slow page turns.
I have recently bought a Kindle DX and while it doesn't have all of DR's features regarding PDF files, it's quite useful and handy for reading 2-column files. Of course, if the text size is quite small in the file, then the portrait mode might not be useful and reading a 2-column file in landscape mode is a total pain. I would imagine that the DR would suffer from similar problems, the zooming capabilities notwithstanding. Of course, I am just speculating and people who actually own the DR might be able to provide better input.
Since, I also want to use the same Kindle DX for pleasure reading, I find that having access to the Amazon store is quite a plus.
Nitin
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