Joe Dunckley › Likes

Not what you might expect from Angewandte Chemie... - Cameron Neylon

via Anna Croft - Cameron Neylon

See also this discussion: http://friendfeed.com/science... - Martin Fenner

Hmm, good point. There may even be some Atlantic divide in this. Not necessarily wrt social media, but wrt interest outside one's own field. Moreover, I'd speculate that there also is an age gap: as you get older, you feel confident enough also to look outside of your own field, because you've learned enough so your own field doesn't require all of your capacities any more. - Björn Brembs

What do you mean worked examples? In our open URL resolver article page we using the Scopus and the WoS APIs to provide links to similar articles and citing articles. It would be cool to be able to add if the article has been reviewed in f1000. This blog post describes: http://bibwild.wordpress.com/2009... . Is that what you're looking for or? - Christina Pikas

yeah, that's cool, thanks. We do have RSS on the dev site now: at least for every page that has changing information. - Richard P Grant

Language was a little strong for me "...climate-change-denialist fringe..." not so (http://tr.im/Gw5p). Seems based on ideology as is somewhat condescending, e.g. "This paranoid interpretation would be laughable were it not for the fact that obstructionist politicians in the US Senate will probably use it next year as an excuse to stiffen their opposition to the country's much needed climate bill." The real solution is doing this research in the open. - Andrew Lang

Also felt that the "actions more important than words" argument around preventing the IPCC report referring to those two papers is a little disingenuous. Who stopped the block happening? Nor does this address the fact that it isn't just what did happen but what is perceived to have happened as far as the media/public are concerned that is important. Substance and perception are both... more... - Cameron Neylon

PQ - "One of the things we do here at PhysMath Central (and our sister companies BioMed and Chemistry Central) which not all publishers do is format our full-text articles in freely-available XML and MathML. From a production point of view it makes sense as we can generate html and pdf versions of the article from the same source, but beyond that there are a plethora of possibilities that anyone could exploit due to their machine-readability. However it seems that machine-readable documents have yet to find an enthusiastic audience beyond a few data-miniing specialists." - Graham Steel

Thanks for that, Cameron. - Graham Steel

Nice simple starting point. Philosophy here is to make it easy for the user to connect up objects that already exist somewhere on the web when they write up a lab report. - Cameron Neylon

incidentally the other half of this is something that looks like DropBox on scientific steroids. Files dropped into a directory get posted as blobs to the store with whatever metadata can possibly be captured - as far as possible with no user intervention. - Cameron Neylon

Yes, yes. Very much like. - Neil Saunders

Very nicely summary of the problem. Really, the whole concept of a journal article about software is stupid. What does an academic article do? Alert people to a new finding/discovery. But in the case of software - well, the software is the finding. And people are "alerted" by finding it on the web, downloading it and using it. As Bosco says, the sole role of an article here is a CV tick - hence the hybrid approach. Non-academic programmers must find all of this very odd. - Neil Saunders

*giggle* - D0r0th34

so are the German phrases :) - Michael Kuhn

Why am I not suprised...? - Cameron Neylon

I'm wondering what our generation is going to say the one after us is failing to adopt. Seems to me like there's an unspoken assumption behind the question - either there has to be mass uptake for it to be useful or something along the lines of "What's the business model?" These questions invariably seem to come as people are trying to justify the use of web20 tools to themselves or... more... - Mr. Gunn

The amount of genomic sequence data being generated and made available through public databases continues to increase at an ever-expanding rate. Downloading, copying, sharing and manipulating these large datasets are becoming difficult and time consuming for researchers. We need to consider using advanced compression techniques as part of a standard data format for genomic data. The inherent structure of genome data allows for more efficient lossless compression than can be obtained through the use of generic compression programs. We apply a series of techniques to James Watson's genome that in combination reduce it to a mere 4MB, small enough to be sent as an email attachment. Availability: Our algorithms are implemented in C++ and are freely available from http://www.ics.uci.edu/~xhx.... - Duncan Hull

an impressive feat of compression, like mp3 for dna! although thankfully lossless :) - Mike Chelen

how long before human genomes as spam ... - Anna Croft

"Two predictions: * Within 5 years, most medical journals will be open-access. That means every journal will do what Medscape has done since day 1 in May 1995: provide access to trusted articles and data at no cost. * Peer review as we know it will disappear. Rather than the secretive prepublication review process followed by most publishers today, including Medscape, most peer review will occur transparently, and after publication." - Daniel Mietchen from Bookmarklet

5 yrs most med jous OA? nice if it's true. at the current rate it's not going to happen that quickly. but perhaps we'll reach the crisis point where everything speeds up, or elsevier goes bust. as for the peer review, that's definitely going to take some time... - Joe Dunckley

The advantages are so obvious. What are the real-world problems for getting this established? Thanks for posting this. - Björn Brembs

One major problem with setting up UAIDs seems to be the identification of a single provider of these IDs, and the monopoly that would result from it. So I feel like asking a provocative question: does one really need to have only one UAID provider ? When nucleotide databases were started, new sequences were communicated either to EMBL or Genbank, or even to other, more specialised,... more... - Etienne Joly

see http://twitter.com/jayrose... for another way to say the same thing - Bora Zivkovic

At first, I found the post rude and uncaring. Then I read the comparison with smiths and car factories and thought: good point! :-) - Björn Brembs

am i allowed to "like"? :) - Joe Dunckley

Of course, Is this your first Nature paper :-) - Duncan Hull

it is :) - Joe Dunckley

"The problem is that we keep thinking in terms of journals, as though a pair of covers around a set of paper documents has any relevance in the modern world." <-- spot on. Come on, "The Journal of Stuff"? - Joe Dunckley

I love the idea of modular pieces you can plug together. Really plays to the "publisher as service provider" idea that Michael Nielsen has been writing about. - Cameron Neylon

Richard Poynder adds some historical context to the new PLoS Currents. Fun read for anyone interested in OA. - Bill Hooker from Bookmarklet

"Because that's not how you get funded. Your funding/tenure, etc are related to where you publish, how often you publish, etc. It's a systemic issue, a system designed for a different era which just does not translate to today's science" - Deepak Singh

Please forgive me, Michael, I just had to test the boundaries of the room with this one... Figure FAIL - Noah Gray

Seems like we presented these out of order, eh?? - Noah Gray from iPhone

I thought Pawel in particular might enjoy these. - Bill Hooker from Bookmarklet

Nice find Bill! Thanks a lot. I haven't seen Kropilak's photography before. - Pawel Szczesny

people always whinge about dawkins doing harm by turning the religious away from science. i'm skeptical of this (the dim ones never got science, and the intelligent ones are quite capable of rising above it). but i bet he's converted a lot of atheists who have found him through TGD to the delights of learning about science. - Joe Dunckley

Confirms what was said for Open Access Day http://openaccessday.org/wp-cont... "Universities, who support and produce research, can’t keep up with inflating journal prices and are forced to cut subscriptions. With Open Access, instead of cutting off access to information to professors and students, we are able to provide that knowledge without increasing the college’s costs.” Diane J. Graves, University Librarian, Trinity University (Texas) - Duncan Hull

if stuffed up = screwed up, shoot, i can see that in firefox :) - Christina Pikas

Trust me, it's more fun with lynx :-) Now, would you like an invalid cookie or three? - Neil Saunders

Peter asks: "So why does academia use PDF? Because the publishers like it. Because it looks like a good way to preserve things" -- There are many reasons why publishers should not / do not like PDFs. But I've heard more than once that it is the scientists and academics themselves who like / are most comfortable with PDFs and that publishing companies ought to provide documents in the format that their readers want. - Hilary

Peter Murray: a lossless compression format such as TIFF is preferred over JPEG at times when the image quality is significantly more important than the file size - Mike Chelen

awwwwww :D - laura

what about the electrons? - Paulo Nuin

Maybe the atom is H+..... - Nils Reinton

Lots of details on the case here: http://www.citmedialaw.org/threats... - Hilary