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Some new science twitter peeps interested in good places to host data from abandoned projects. Good time to make a list?
Chemspider, Talis Connected Commons, Neurocommons... - Cameron Neylon
The institutional repository. - D0r0th34
as long as it is google accessible...and I think several of these people come from unis without repositories that are good on data but nonetheless, this ought to be the first choice... - Cameron Neylon
Most IRs are. :) - D0r0th34
How many are set up to cope with data? I should know this - but I've always tended to go off site or have our own services. It always seemed difficult for the Cambridge people to get stuff in and out. - Cameron Neylon
What sort of data are we talking about, and what kind of coping do you need? - D0r0th34
Bleh, I should have read the OP. Here's the basic skinny: IRs will do fine with discrete files in pretty much whatever format you care to throw at them. Actual databases are liable to be a problem, however -- the IR won't have built-in query capability for them. Ditto anything (model, visualization, whatever) requiring specialized interaction patterns. Does that help? - D0r0th34
(free) Amazon Public Data sets... (free?) http://www.freebase.com/ (not free) Amazon S3... Microsoft Azure... - Richard Akerman
D, yes that's helpful. Presumably anything with specialised metadata is also unlikely to be exposed? I think the problem is that most of these are collections of files, sometimes with some sort of descriptive file that a specialist could make sense of. Google Data Sets would have been perfect for this....[sigh] - Cameron Neylon via twhirl
maybe archive.org? also think direct p2p release will become an increasingly viable option - Mike Chelen
Specialized metadata may be manageable; talk to the IR specialist. The tech infrastructure will unfortunately determine a bit too much... but even DSpace can deal with novel key-value pairs. (Hierarchical XML metadata, unfortunately, it won't do much with... not without srs Manakin hacking.) - D0r0th34
So key message is talk to your local IR people... ;-) - Cameron Neylon
OAI-ORE is built for this kind of thing of course but I don't know if there are any tools for packaging arbitrary things up that way. - Cameron Neylon
Not yet, I don't think, but yes, one hopes it's coming. (HvdS may have built it already, of course!) And yes, a lot depends on how accommodating and enterprising the local IR folks are. Some are more, some unfortunately not so much. - D0r0th34
What about if odds and ends of data come from different institutions? My PhD, 1st postdoc and 2nd postdoc have all generated odds and ends that might be useful to someone but no longer of interest to me. I think it would be better to have it all in one place, not odds and sods in each relevant IR. - Clare Warren
You need an institutional affiliation to use it, but Dataverse (http://thedata.org/) is pretty good -- easy to set up, web or local, lots of options. For instance, each lab could have its own dataverse for the sorts of "odds and sods" that Clare mentions. - Bill Hooker
I think that a torrent tracker for scientific datasets would be sweet - Marcos de Carvalho
torrent is kind of cool/amusing idea but if no one is seeding the torrent, it is effectively gone - Richard Akerman via BuddyFeed
mininova provides free torrent hosting & seeding through their content distribution program http://www.mininova.org/distrib... however researchers may feel opposed to the use of consumer grade solutions - Mike Chelen via IM
Web seeding from one of the providers cited above could be an alternative, in addition to the swarm. This could help relieve the bandwidth from a unique source and also acts as a backup in case everybody stop seeding a specific torrent or the default provider goes out. - Marcos de Carvalho
Although Mininova is a cool service I agree that people would be a little afraid to use it. However, searching SourceForge I found lots of opensource torrent trackers, LAMP based, ready to install. - Marcos de Carvalho
nice thing about mininova is that they provide the file hosting, and maintain at least 1 seed indefinitely. a web seed can accomplish something similar now too, given how inexpensive hosting plans have become. here's an example of scientific data (fasta dna from ensembl project) being distributed: http://www.mininova.org/tor... - Mike Chelen via IM
another promising p2p filesharing system is made by http://wuala.com using a modified bittorrent protocol, and features filesystem integration allowing the distributed data to appear as a standard network drive. however, it isn't backwards compatible with bittorrent - Mike Chelen via IM
Clare, I don't argue with multi-institution work as long as one of the collaborators is from my institution. I agree that we have to work past institutional boundaries. - D0r0th34
@P212121 there's got to be a joke in there somewhere about reciprocal online spaces but it just isn't coming to me
@lorddrayson Turning data into knowledge. Web has lots of data but we're only at the very beginning of turning it into "actionable insights"
"actionable insights" was a term used by someone at Elsevier. Can't remember who though... - Cameron Neylon
HEFCE: Three-year drive to boost STEM will raise student numbers and aid economy (via @BiochemSoc_Beck) - http://www.hefce.ac.uk/news...
Opportunities for developing science in education programmes? - Cameron Neylon via Bookmarklet
RT @lorddrayson: Just met Tim Berners-Lee, Nigel Shadbolt & Andrew Stott re semantic web and making public data, well, public. Exciting ...
@covert So it only doesn't work on 10.5 with aluminium unibody macs perhaps?
@covert I'm running 10.5 so that would make sense. re: 3G dongles not always working on macs
@m1ke_ellis not sure on network but I and others had problems with macs.I had trouble with a 3 one and @covert mentioned probs recently
@kjhaxton @geologyclare Chemspider is good for some things in chemistry Talis Connected Commons if you have things in right form #nesta
@geologyclare The real challenge is getting then in front of the people who need them or can carry them forward effectively #nesta
@geologyclare there are some more sophisticated options depending on where you are but anything visible to Google is a good start #nesta
Am I allowed to be pedantic and complain about capitalization? Write the text out as a paragraph and you'll see what I mean. Other than that (and yes, it is pedantic), these are great. - Bob O'Hara
Actually it's worse than that. I have inconsistently used a colon and semicolon! Oh the shame! Well you can always fix it :-) - Cameron Neylon
I have now slightly modified these to try and make it clear what my intentions are for the composition (ccZero) and provide a link and attribution to Chris Ross who has given permission for the social icons to be used. - Cameron Neylon
@covert focus on making the commute useful. As quiet work time or as headspace. Needs to be long enough but not too long
Mockup of permissions slide for more control
Photography not permitted
Filming and videoing not permitted
Broadcasting not permitted
Blogging not permitted
Twittering and microblogging not permitted
Posting of video not permitted
Someone hates social media... - Benjamin Tseng
I really like the concept of these images, but I am concerned that you have used a CC attribution license on flickr. Firstly, I am not sure if you can really CC the images that are derived from YouTube and Twitter logos in this way. Secondly, the CC license requires that if anyone wants to use them in their talks they have to put an attribution to you on the slide. Do you really want to require this? - Matt Leifer
All I'm doing at the moment really is to put some ideas out there as to what people could do. The social media images are part of a collection that is described as "free for use". If there is any copyright in what I've done (which frankly is pretty doubtful) with the collection of things then that doesn't necessarily make any difference to the original rights which flow through. And I... more... - Cameron Neylon
That sounds fair enough. Where do the social media images come from by the way? - Matt Leifer
Oh good point. I got them from here - http://www.thisismyurl.com/free-do... - Cameron Neylon
Since the facts of a presentation are not copyrightable, maybe the text should read more in the direction "You are kindly asked to not (immediately) blog, twitter etc. this presentation"? And maybe also make the logos more suggestive of "request" rather than prohibition? (at least for the ones that are transcription rather than recording) - Anders Norgaard
I thought about wording it "Please do not..." but decided against because it seemed somewhat unclear. There would be an argument that such a panel forms the equivalent of "click wrap" agreement (by staying and listening you are agreeing to my conditions) so copyright per se isn't necessarily the only right or limitation. How would show a request rather than a prohibition? Red circle? - Cameron Neylon
"Greyed out"? - Anders Norgaard
IANAL, but isn't emulating "click wrap" agreements a really bad idea? The EULAs of software are pretty much universally despised and ignored. And your sensible point about licensing of data - that assuming rights in databases of facts is on shaky ground must equally apply here? - Anders Norgaard
Probably, and obviously I'm not a lawyer either, but I just meant to make the point that copyright per se wasn't the only potential right that a presenter held. There are also arguably performance rights in any audio and video, broadcast rights in some jurisdictions, and potentially other contractual rights. The reason I said "not permitted" was simply that it is (hopefully) clearcut,... more... - Cameron Neylon
sxc.hu has an open license option, pretty mucht he only restriction is you can't use the images for porn... - Brian Krueger - LabSpaces
I agree that audio and video is different from transcription (twitter, blog, etc.) so it may also be worth trying to distinguish. Oh, well. - Anders Norgaard
Wrt. blob vs live-blog on one of those images: I don't see much of a difference between live-blogging during (or right after) a presentation at a meeting on one hand, and blogging about some topic right after you get home from the conference. If people presenting work wish to limit the audience in terms of how they can or cannot discuss what they are presenting with, then why are they... more... - 'Mummi' Thorisson
Also, if a conference I was interested on attending stated on its website that at any or all talks I could expect to be 'gagged' in some way or another, I just wouldn't go :( - 'Mummi' Thorisson
Some slides for granting permissions (or not) in presentations - http://blog.openwetware.org/science...
Cool and useful - thanks Cameron! (in case everybody missed saying that in amongst the constructive criticism! ;)) - Euan
Very much like - thanks for this! - Allyson Lister
Permissions - liberal licence - http://www.flickr.com/photos...
Permissions - liberal licence
Grant scheme for innovation in Researcher Career Development http://www.vitae.ac.uk/policy-... up to £100k
In which I seek continuity - http://network.nature.com/people...
Could we make this better? Or is it really just a pipe dream? - Cameron Neylon
It's sloppy work, is what it is. When I leave a lab I leave behind organized and labeled freezer boxes and multiple copies of a cheat sheet showing the location of every important reagent and all original data. It's just not that much work to do this -- it should be expected of every professional scientist. (As should decent notes that other people can follow, but I learned long ago that some things are considered just too much to ask...) - Bill Hooker
2 jobs in the Navy I left very complete notes, points of contact, and had 1-2 week turnover periods... my successors both threw out my notes and got into serious trouble within months and in the first instance, I had to bail them out by stepping back in and cleaning up.... so it sounds good, but if your successor will toss it anyway, then... - Christina Pikas
I think the problem Jenny (and Christina) raises is more one of people, so the only way to improve it is to train scientists to be more methodological. - Bob O'Hara
But you also run rapidly into the things that don't get written down. The whole tacit knowledge thing. It sounds in some ways as though Jenny had quite good information here but somehow it still manages not to be enough (alright putting aside issues with DNA not being there and things like that). Better record keeping and better thinking about what the record is _for_ is good and we... more... - Cameron Neylon
@kjedler does the #18bus stop opposite the train station now? Or does it skip that stop still?
@David_Lara @AntArch I use twhirl which I find quite good but prefer Friendfeed functionality. But depends where your community is.
@AntArch - perhaps ask them whether a mobile phone is a "valid" means of communication. Clearly if not they should not use that either?
Interesting Blog I hadn't come across before - via @CasesNetwork on Twitter http://wishfulthinkinginmedica...
Reflections on medical education in a digital world - Cameron Neylon
FGW have not only canceled the 0813 from Bath. But have also sent a train barreling through the station. How to make customers happy.
.@kjedler One of the things people like about the approach is that they can track what is happening in other sessions. Even ask questions...
Calling all #NESTA #Crucible people @LordDrayson has a surgery (see http://search.twitter.com/search...) If you have ideas then pass them on (via @kejames)
Conferences as Spam? Liveblogging science hits the mainstream - http://blog.openwetware.org/science...
@cromercrox - Yes, it is advertised widely. "Dr Gee's Commute" is widely known as the 47th least awful train trip in the world..
Talking to the next generation - NESTA Crucible Workshop - http://blog.openwetware.org/science...
Some interesting responses back at the blog post now - both from the perspective of people commenting back over there because they are unaware of Friendfeed, which is fair enough, several of them have popped up on twitter though. Also interesting from the perspective of senior mentors perceiving different types of risk in their junior colleagues behaviour... - Cameron Neylon
NESTA - Science in Society - http://www.slideshare.net/Cameron...
NESTA - Science in Society
Love it and thanks for sharing like always. In regards to slide 58: I'm not planning on doing anything about it soon, but what are others doing in regards to bringing middle-school (and high-school) science fairs into the 21st century? I do some judging and of course it's still the same format you see in that photo on slide 58. Would be cool to get some ONS going...would the issues with... more... - Steve Koch
We've been trying over here to get combi-Ugi or something similar going at undergrad level with the aim of developing something that could work in schools. Also looking at some environmental/observational stuff which should be easier but its tough to get funding and find time to get all the groundwork done. And the safety/permissions/liability aspects are a nightmare. - Cameron Neylon
Steve - it might be possible to do something with commonly available organic materials like caffeine, ASA, etc. in available solvents like methanol, isopropanol, glycerol, mineral oil., etc. but we have not tried with high school students yet. I think our recent sequential precipitation technique would work particularly well because it does not require solvent evaporation. The Submeta awards are for university level students currently. - Jean-Claude Bradley
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