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Have you seen eLife's Lens reader? Example article is at http://lens.elifesciences.org/#00772

They took a fresh, web-centric look at how to interactively display research papers. It's being used — right now — to display all of the new articles from a major biology journal.

I think it's quite nice.

Cool, I hadn't seen that.

Personally, I think that things like this Lens reader are evolutionary advances, but science communication needs a revolutionary change.

I don't expect actual journals to be using Gingko any time soon, but there are already grad students collaborating on research papers right now :)

Wow, this is so much nicer than PDFs. Thanks for the example.

You might have heard of this World Wide Web thing. It works pretty well at CERN. We just just have to switch the academic publishing industry to HTML now.

Agreed. And I think we greatly underestimate how much this is holding Science back.

I haven't used it myself, but would IPython work? http://ipython.org/