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Free Culture

SCOTUS: DNA is information, not a chemical

Should DNA be subject to copyright law, rather than patent law? Section 101 of Title 35 U.S.C. sets out the subject matter that can be patented: Whoever invents or discovers any new and useful process, machine, manufacture, or composition of matter, or any new and useful improvement thereof, may obtain a patent therefor, subject to the [...]

Group review, continued

I love it when other people use my ideas, especially before I think them up. After my previous post advocating group review of scientific articles, it was pointed out to me that two journals are already using group reviews to referee their papers. One is Frontiers (which is a collection of journals, rather than a [...]

PeerJ

I didn’t have a clever title. “PeerJ: a new kid on the block” was already taken by Bora Zivkovic.  ”PeerJ: Publish there or suffer” is aggressively counterproductive. “PeerJ is awesome”. Meh. So: PeerJ. A new open access scientific journal. PeerJ is the brainchild of Peter Binfield who was the managing editor of PLoS-one, and  Jason Hoyt who [...]

Open Access Explained. Well.

Today is the last day of Open Access Week, where all things Open Access are heralded. William Gunn gave a great talk here at MU on how open access is changing scholarship. (And a big thank you to our librarians Jen Waller & Kevin Messner for hosting William!)  I have posted about Open Access before, [...]

Should research code be released as part of the peer review process?

So there have been a few reactions to my latest post on accountable research software, including a Tweeter kerfuffle (again). Ever notice how people come out really aggressive on Twitter? Must the the necessity to compress ideas into 140chars. You can’t just write “Interesting point you make there, sir. Don’t you think that your laudable goal would [...]

Can we make accountable research software?

Preamble: this post is inspired by a series of tweets that took place over the past couple of days. I am indebted to Luis Pedro Coelho (@LuisPedroCoelho) and to Robert Buels (@rbuels) for a stimulating, 140-char-at-a-time discussion. Finally, my thanks (and yours, hopefully) to Ben Temperton for initiating the Bioinformatics Testing Consortium. Science is messing around with [...]

Does Open Access benefit small universities?

There has been quite a lot of chatter recently about different scientific publishing models. Prompted by Elsevier’s support for the Research Works Act, and the resulting proposed  academic boycott. Let there be no mistake: I value the Open Access (OA )model of publication, for both moral and practical reasons that have been elaborated upon in [...]

Wikipedia pages on protein function prediction

I just received an email from Julian Gough , one of last year’s CAFA participants. He started a Wikipedia initiative on protein function prediction, which are barely stubs at the moment. EDIT: He alerted me to the fact that protein function prediction has virtually no presence on Wikipedia. So all you protein function predictors out there, please contribute. Yes, [...]

Open Cancer Research

  “We seek to download from the amazing successes of the computer industry two principles: that of open source, and that of crowdsourcing; to quickly, responsibly accelerate the delivery of targeted therapeutics to cancer patients. Our business model involves all of you. This research is funded by the public.”  

Circumcision, preventing fraud, and icky toilets. You know you’re going to read this.

In no particular order or ranking, recent and not-so-recent articles from PLoS-1. The common thread (if any): I thought they were pretty cool in one way or another.   1. Men don’t tell the truth about their penis. No kidding? But this is somewhat more serious. It has been accepted for some time that male [...]

Rumors of The Scientist’s Demise Have Been Greatly Exaggerated

The Scientist is one of my favorite go-to destinations for keeping up with current biomedical research. That’s why I was rather sad when it was recently announced that The Scientist will be closing down. However, it seems like The Scientist will continue to be published after all:   NEW YORK, NY–(Marketwire – Oct 14, 2011) – [...]

Suggest a name for the next BIG journal

The Max Planck society, Howard Hughes Medical Institute and Wellcome Trust have announced their plans for a new journal for biomedical and life science research to be launched summer 2012. From the joint press release: The journal will employ an open and transparent peer review process in which papers will be accepted or rejected as [...]

Free science books!

  The National Academies Press are offering all their books in PDF format for free. The announcement yesterday created a serious traffic surge on their site. But the books are still there, and are still free. Got to buy that new 5Tb external disk now….

Open Access: the Revolution Will be Convenient

Some time ago an article in Linux Journal discussed the adoption of free/open course software (FOSS) by the general public. The article (I can’t seem to find it now) talked about the people that do not care about the distinction between Free as in Free Beer vs. Free as in Freedom (libre). They want software [...]

A Bad Rap

This came in my inbox today: solicitation to submit manuscripts to a journal completely outside my area of interest and proficiency. My email client software had an interesting reaction to it: The next email in my inbox was this: OK, that’s taking things a bit too far. Random solicitation of editors (did I mention that was not [...]