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Yaroslav Nikolaev › Likes
First Bioprinters Available for Life Sciences Research - http://www.medgadget.com/archive...
Peter Miller, Yaroslav Nikolaev, bifurcafe and 6 other people liked this
How cool is this! - but presupposes that all the signal required for tissue specific differentiation come from physical interactions. Surely you are likely to end up with artfully arranged but disorganized "embryoid bodies"?
- Richard Badge
from Nambu
maybe the placement could be coordinated with induced growth, perhaps by precisely controlling application of chemical messengers?
- Mike Chelen
Duncan Hull to Duncan's feed, The Life Scientists, Semantic Web for Health Care and Life Sciences IG
The Semantic Biochemical Journal experiment « O'Really? - http://duncan.hull.name/2009...
Mickey Schafer, Hope Leman, joergkurtwegner and 19 other people liked this
"There is an interesting review [1] (and special issue) in the Biochemical Journal today, published by Portland Press Ltd. It provides (quote) “a whirlwind tour of recent projects to transform scholarly publishing paradigms, culminating in Utopia (http://www.getutopia.com) and the Semantic Biochemical Journal experiment”. Here is a quick outline of the publishing projects the review describes and discusses: Blogs for biomedical science Biomedical Ontologies – OBO etc Project Prospect and the Royal Society of Chemistry The Chemspider Journal of Chemistry The FEBS Letters experiment PubMedCentral and BioLit [2] Public Library of Science (PLoS) Neglected Tropical Diseases (NTD) [3] The Elsevier Grand Challenge [4] Liquid Publications The PDF debate: Is PDF a hamburger? Or can we build more useful applications on top of it? The Semantic Biochemical Journal project with Utopia Documents [5] The review asks what advances these projects have made and what obstacles to progress still exist....
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- Duncan Hull
from Bookmarklet
Am I missing something here? I only seem to see a few popups when mousing over references?
- Cameron Neylon
Interesting though getting started wasn't entirely transparent. Figs are interactive (pink background and menu) so, for example, data from Fig 9 can be replotted. Tended to spawn popups at an alarming rate. Fig. 13e appeared unable to load into popup.
- Peter Miller
@Cameron, you need to download the Utopia client to get the full effect http://www.getutopia.com the animations are embedded in the PDFs and viewable within the client. It's not a browser based thing (yet).
- Duncan Hull
Done that, looking at both the paper online in enhanced version and pdf I'm not seeing any visual cues or anything that take me anywhere much. Do I need to have the utopia client running as well? Ok you need to open the pdf in Utopia. That's really not immediately obvious I have to say, particularly with the "enhanced online version" getting billing front and centre. Ok I could have read the instructions but its only the mention that Utopia is a "pdf reader" that tells you what to do. Could be clearer.
- Cameron Neylon
Have to say that the idea of a semantically enhanced pdf I have to download and open up in a particular viewer seems to be somewhat missing the point :-)
- Cameron Neylon
Also seems odd that the enhanced online version doesn't at least include the links that are in the enhanced pdf
- Cameron Neylon
@Cameron I see your point, I'd like to see a more web friendly version but there are some limits to what you can do in a web browser (especially when it comes to sequence alignment and molecular visualisation)
- Duncan Hull
Yes, and that is all fair enough - you need to start somewhere but you'd think the links could be translated across pretty easily (e.g. Caspase-3 in paper 1, fig-1 legend is linked in the PDF to a wikipedia entry, why not in the online version?). Bring on HTML5 is what I say :-)
- Cameron Neylon
@Cameron ... and yes, its an "experiment" too (normaly caveats apply!). The thing to look for is the little Utopia Documents icon embedded in the text once you've opened up an article (e.g. the review) in Utopia documents. Thanks for the rapid feedback...
- Duncan Hull
Yep, found it eventually. I'd suggest changing the instructions to be much more explicit. i.e. Download Utopia, then download pdf, then open in Utopia. Most people will have pdfs set to autoload in something else so its not an obvious path - particularly to people used to plugins and overlays. Heh, next quetions can I leave a comment on the journal article to suggest this....mmmm.....that would be a "no" then... ;-)
- Cameron Neylon
Dear Santa, Please can you provide Utopia for Ubuntu/Debian/Linux. Thanks :)
- Allyson Lister
I just skimmed it initially - didn't note the requirement for this odd piece of software. Puts paid to it for me, I'm afraid.
- Neil Saunders
From Philip McDermott: "ubuntu version in the works but just slightly delayed for launch. I'd have thought it'll be available next week sometime"
- Allyson Lister
The idea of a specialized PDF reader for this means it's just a proof of concept at this stage. I'll mention it to the Mendeley people and see if they might like to incorporate some of this into their internal PDF reader.
- Mr. Gunn
@Mr. Gunn thanks...
- Duncan Hull
@Mr. Gunn thanks. Be interesting so know what they think of it, feel free to put them in touch with us :o)
- Philip McDermott
I think that the initial confusion of PPLs website has confused a lot of web-oriented users. Try grabbing the app, the paper, and working through it, and you should get a feel for what we're trying to do. We're not saying web-based is bad, it's just that this is a little different.
- Philip McDermott
@Philip see also commentary here http://digitalcuration.blogspot.com/2009...
- Duncan Hull
As I understand it the PDF reader software is just an initial client for the backend which lets you annotate whatever - and from where all the annotations are fetched. If (when?) it gets opened up you could extend the existing client to read other files, write your own client, write a Firefox plugin, whatever...
- Euan
@Euan yes that's right (and you put it much better than me). As for opening it up, you'd have to ask the Utopia team... it would make a lot of sense.
- Duncan Hull
I like the concept of the Utopia reader. But the integration of references could have been done better. Why not use DOIs instead of linking to a Google Scholar search?
- Martin Fenner
Dear Santa, like @Allyson I really hope your reindeer's can still pull the Linux version, too.
- joergkurtwegner
Besides, how does it compare to the interactive ICM in PLoS ? http://ff.im/acHs9
- joergkurtwegner
Somehow missed that. RT @gbilder: Yay!! Official site for new Author Identity initiative (ORCID) is up. http://science.thomsonreuters.com/orcid... #orcid
Yaroslav Nikolaev, suelibrarian, Richard Akerman and 2 other people liked this
How can regular scientists participate in the ORCID initiative? Cameron had created a "Unique Identifiers for Researchers" LinkedIn group. Should the discussion happen there?
- Martin Fenner
mmm that's still the thomson-reuters branded site. Would be much happier if this had its own domain name. Not that its a major problem but it shows a disturbing lack of awareness of some of the issues people have around identifiers...
- Cameron Neylon
http://www.orcid.org exists, but currently still redirects to the Thomson Reuters site.
- Martin Fenner
Yep and that's almost precisely my concern - redirects don't look good. Redirects to an organization that many people would feel uncomfortable with controlling their identity looks a lot worse. I like a lot of what they've done with ResearcherID but no way is my identity as a researcher going to sit on TR servers.
- Cameron Neylon
@Cameron... I agree that the system must be open, with the option of alternative providers...
- Egon Willighagen
Life Scientists 2009 summary - http://nsaunders.wordpress.com/2009....
Jason Stajich, Yaroslav Nikolaev, Abhishek Tiwari and 19 other people liked this
This blog post is rather rough and ready - a work in progress - but I wanted to push it out before the holidays. Find out which items from this group in 2009 were most discussed (comments/likes)!
- Neil Saunders
hey, good stuff: especially like the healthy diversity concerning the contributors of most commented/liked entries, do you happen to have a little stat on the most frequent contributors in terms of number of entries, likes, comments or all of them?
- Attila Csordas
It's certainly easy to calculate per user contributions using the API data, but I haven't done it. Might be fun, but I'm more interested in what's discussed than who posts. Feel free to adapt my code!
- Neil Saunders
what's the license for the code, and is there a way to download it other that copy+paste? looks cool, thanks for sharing!
- Mike Chelen
Licence is "it's on my blog, you can copy it and do what you want" :-)
- Neil Saunders
ok cool, that means CC-BY-NC-SA?
- Mike Chelen
It means I don't take licencing of my posts very seriously :-) Although now I look closely at my blog, the relevant icon is top-right, just above the search box.
- Neil Saunders
although NC and SA clauses are a bit restrictive, it is fine for the time being. since the code is useful, giving licensing some consideration may be worthwhile :)
- Mike Chelen
If it were actual code for download, I'd think about it more. When it's text on an open, public web page, I just assume people will do with it what they will. Anything goes, except claiming that you wrote it :-)
- Neil Saunders
copyright law prohibits duplication without your consent, regardless of whether it is on a website or in a repository. while some may break these laws, many of us are committed to working within its boundaries through the use of open-source licenses :)
- Mike Chelen
I'm intrigued that things are so spread out - no one person has more than one entry in the top 10 list...good sign of collaborative effort IMO
- Cameron Neylon
Facebook acquired FriendFeed on August 10. Am I right that there is no significant change in number of posts over the year or after the acquisition?
- Martin Fenner
This is really cool Neil. When I saw readI immediately though if this could be done on a rolling monthly basis this could be the new version of BioBlogs. Maybe some sort of simple Sinatra app.
- Michael Barton
Sample sinatra app on Github and hosted on Heroku :)?
- Deepak Singh
Neil, I agree w/ you: most commented/liked entries are more interesting than the list of most frequent contributors (although that is interesting nevertheless)
- Attila Csordas
I like the idea of automated monthly analysis as a web app! Tricky bit will be fetching only new entries and not missing any, but once a db structure is in place, shouldn't be too hard. I'll give that some serious thought.
- Neil Saunders
My calender says "No calendar items for today or the next seven days". Merry Christmas !
Yaroslav Nikolaev and Bill Hooker liked this
Lucky devil
- Deepak Singh
Seth’s blog » Blog Archive » What’s Appreciative Thinking? - http://www.blog.sethroberts.net/2008...
John Dupuis, Yaroslav Nikolaev, ashish and 3 other people liked this
"To learn appreciative thinking is to learn to appreciate, to learn to see the value of things. More or less the opposite of critical thinking. That I had to make up a phrase shows the problem. I have complained many times about an overemphasis on critical thinking at universities. Sometimes I’d say, “Have you ever heard the term appreciative thinking? No? How many times have you heard the term critical thinking?”"
- Michael Nielsen
Perhaps the most valuable lesson in this vein I learned from Peter Elbow (courtesy of a grad prof who saw me struggling with an alternative ed environment where my hyper-critical approach was most definitely not valued!) -- here is an updated version articulating "The Believing Game" or "Methodological Believing" written in 2008: http://works.bepress.com/cgi...
- Mickey Schafer
I also think scientists practice this kind of inquiry more often than they realize. When deciding on a method design, for instance, eliminating "wrong" choices isn't the challenge. Instead, the researcher has to imagine/visualize competing options as though they had happened, and this is an act of methodological believing -- and I think is a critical strategy in basic science. Funny that we do it far less as readers, though Elbow does a good job of providing a brief history of why this might be so.
- Mickey Schafer
I wonder if peer review as a public process wouldn't be more acceptable if it were done with appreciative thinking.
- Mickey Schafer
A good reminder to look for the positive but as some of the commentors said, it is a very skewed view of critical thinking. The comment about philosophy depts. is spot on, sadly. In my lowly humble opinion I think this is a result of the academic game, esp. as currently played out. Status & point scoring, showing others to be wrong is more valuable to getting a job/tenure than is building. To me, appreciative thinking is a part of critical thinking.
- Mar₭ Liŋdŋer
Mickey - Very interesting, and accords with my experience in a very different area. I've found that that frequent switching back and forth between different modes of thought helps a lot. Being "right" every step of the way seems to be useless - it's too confining to do good creative work. On the other hand, being wrong in productive ways seems to be something of an artform; it's easy to...
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- Michael Nielsen
Right now, it seems that the approach to open science really focuses on a product -- an object of some kind (data, text) that can be shared/re-purposed. There needs to be a second element -- the process itself. A record of the thinking ("think alouds" is the term in education studies) that accompanies the project. I think this is where Open Science could make even more of a contribution -- revealing process has more catalytic potential than even sharing failed approaches.
- Mickey Schafer
Too many of the criteria suggested are entirely subjective "Did the authors show good taste in their choice of problem?". Good taste?
- AJCann
This sounds to me like a misunderstanding of the "critical" in "critical thinking". It doesn't mean "attack thinking"! Properly understood, critical thinking and the proposed "appreciative thinking" are not opposites; they are not even different in a meaningful sense, the latter being part of the former.
- Bill Hooker
Hi, Bill. The comments in the post do address this issue. But, I agree with the writer that when we learn to discuss research, we do so in a manner which is "attack thinking" -- at least, this is the tradition which most of my peers were trained in. I very much contend with this when introducing students to open research and open access publishing. They immediately begin asking the...
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- Mickey Schafer
@Mickey -- you're right, "attack thinking" is much more commonly taught and practiced than real critical thinking. Given that, I can see the value in stepping back and explicitly asking "what's good about this?", since the standard response is all about "what's wrong with this?".
- Bill Hooker
RT В каких позах не стоит работать за ноутбуком http://bit.ly/5Bm1Mq Для всех у кого есть ноутбук, если вам не плевать на здоровье #lifehack - http://twitter.com/iclever...
Yaroslav Nikolaev liked this
Bioclipse 2: A scriptable integration platform for the life sciences - http://www.citeulike.org/user...
Yaroslav Nikolaev, Pierre Lindenbaum, Ola and 4 other people liked this
BMC Bioinformatics, Vol. 10, No. 1. (3 December 2009), 397. BACKGROUND:Contemporary biological research integrates neighboring scientific domains to answer complex questions in fields such as systems biology and drug discovery. This calls for tools that are intuitive to use, yet flexible to adapt to new tasks.RESULTS:Bioclipse is a free, open source workbench with advanced features for the life sciences. Version 2.0 constitutes a complete rewrite of Bioclipse, and delivers a stable, scalable integration platform for developers and an intuitive workbench for end users. All functionality is available both from the graphical user interface and from a built-in novel domain-specific language, supporting the scientist in interdisciplinary research and reproducible analyses through advanced visualization of the inputs and the results. New components for Bioclipse 2 include a rewritten editor for chemical structures, a table for multiple molecules that supports gigabyte-sized files, as well...
- Egon Willighagen
Comments and questions *most* welcome... or requests for a hands-on on how to write plugins... did you know we have a SDK allowing you to skip the ground work of setting up a new plugin, and focus on the Java code implementing your functionality?
- Egon Willighagen
Awesome images! - Wellcome Image Awards 2009, Winners' gallery, Scientific and medical images - http://www.wellcomeimageawards.org/gallery...
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Mike Chelen, Clare Dibble, Mickey Schafer and 12 other people liked this
Had the pleasure of visiting the exhibit a couple of months ago. Highly recommend the Wellcome Collection, if you find yourself in Euston with some time to kill.
- Neil Saunders
Thanks, Neil, that sounds like a great idea!
- Cesar Sanchez
@Neil aye: see http://www.wellcomecollection.org/
- Duncan Hull
Infotopia: How Many Minds Produce Knowledge - http://www.amazon.com/dp...
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Yaroslav Nikolaev liked this
interesting; my first reaction was: "I dunno - how many minds do produce knowledge?" then I realized that's probably not what it means. ;-)
- tim
Heh. My first thought was along the same lines -- "oh, about 10% of 'em at most".
- Bill Hooker
Amazing gel shows Ubiquitin is transferred one-at-a-time and on a millisecond timescale! - http://www.iayork.com/Mystery...
Yaroslav Nikolaev, Andrew Perry, arek and 17 other people liked this
That's awesome.
- Bill Hooker
Ian York rocks, as do the scientists who did this.
- Mr. Gunn
Gels still speak, even without lasers...
- Mark A Jensen
My initial reaction was "how can anyone pipette that quickly !" ... but it seems they have some fancy quench-flow equipment to get around that problem. Very cool.
- Andrew Perry
IBM: Computing rivaling human brain may be ready by 2019 http://news.cnet.com/geek-ge...
Yaroslav Nikolaev, Piotr Byzia, Nazlı and 3 other people liked this
According to IBM, 'BlueMatter, a new algorithm created by IBM researchers in collaboration with Stanford University, exploits the Blue Gene supercomputing architecture in order to noninvasively measure and map the connections between all cortical and sub-cortical locations within the human brain using magnetic resonance diffusion weighted imaging. Mapping the wiring diagram of the brain is crucial to untangling its vast communication network and understanding how it represents and processes information.'
- Ami Iida
"some of the world's most prestigious universities have already managed to simulate the computing complexity of the feline cortex" - gotta be hype
- Jean-Claude Bradley
as a cat owner, I know that's a very low bar to clear.
- Mark A Jensen
They've known the connectome of C. elegans for 20 years and still can't make a model work like the real animal. We will still learn a lot from failure, though, as usual in science.
- Björn Brembs
Bjorn - that really is the point - the connectome is not enough. Even is simple species like elegans is there not hormonal and other modes of communication besides synapses? Is it understood why the models don't work well?
- Jean-Claude Bradley
Warren L. DeLano 21 June 1972-3 November 2009 : Article : Nature Structural & Molecular Biology - http://www.nature.com/nsmb...
Yaroslav Nikolaev, Piotr Byzia, Mickey Kosloff and 8 other people liked this
"Warren L. DeLano 21 June 1972–3 November 2009"
- Pedro Beltrao
from Bookmarklet
Secrecy in science is a corrosive force - http://news.ycombinator.com/item...
Yaroslav Nikolaev, Konrad Förstner, Leonardo Martins and 4 other people liked this
"Number of efforts across the board, including chemistry and biology. The extreme side of the "open science" world is Open Notebook Science http://en.wikipedia.org/wiki... In general you are required to put enough into the methods section of a paper to be able to reproduce the results, but as the computational side gets more and more complex and supplementary data sets get bigger and more complicated, the need to make the raw data and (if possible) code available for people to reproduce the results becomes almost a necessity. A number of folks are thinking along the publishing side as well. Theres PLoS One (http://plosone.org) and Cell has been doing some very interesting prototyping on the "paper of the future". People have already mentioned JoVE and OpenWetWare. It will happen, but it's going to take a few years. Too many years of established practice."
- Deepak Singh
Another point in the discussion: "Perhaps, in the case of data-intensive work, grants should be given in pairs: one research team gets paid to collect the data, and another team gets paid to analyze it." ( http://news.ycombinator.com/item... ) - definitely yes, though two teams may not be sufficient, so the allocation procedure should be flexible. Fundscience have stated that they plan something like this, but they still haven't started out yet.
- Daniel Mietchen
Daniel - I can't see that working very well - most scientists I know want to analyze their own data at least to the extent that they are capable - let alone permit others to do so. An exception to that is where core competences of collaborators don't overlap. But I do see a future like that when machines publicly report their experimental results
- Jean-Claude Bradley
Article-Level Metrics and the Evolution of Scientific Impact - http://www.citeulike.org/user...
Bill Anderson, Bill Hooker, Anders Norgaard and 37 other people liked this
Article on ALMs by myself and Shirley Wu
- Cameron Neylon
Terrific. Are we still maintaining that list of "outputs resulting from FriendFeed"?
- Neil Saunders
I was planning on doing a demo of annotation at PLoS before the end of the year - perhaps this article would be a good candidate. As always, anyone willing to join is welcome.
- Daniel Mietchen
@ Neil: It's at http://spreadsheets.google.com/ccc... , and I have added the article as #25 (details missing).
- Daniel Mietchen
i added a note once, but now it won't let me add any other notes :( I don't see a rule about one note per person. I should have held off for a good one.
- Christina Pikas
I also just noticed that my "annotation" - provided the link to StackOverflow - shows up in the general discussion, where the title "Link" certainly is not helpful, and there is no way I can edit it.
- Daniel Mietchen
maybe something is broken, my note appears in general comments but also in that portion of the text as a comment. maybe that's why I couldn't add other notes?
- Christina Pikas
Not sure why you can't add more notes. Certainly been able to in the past. I see both notes where they are supposed to be I think. But they will also appear in the general comments as well I think.
- Cameron Neylon
Great article! I really need to add some comments or notes, just to prove the authors' point :-)
- Björn Brembs
BTW, when does PLoS finally get karma? I've been asking for proper 'show off' userprofiles for like ever :-)
- Björn Brembs
As in PLoS Overflow?
- Cameron Neylon
Cameron, et al. - What's the most useful thing I could do to nurture and support this renewed interest in article level metrics? (not from a competing data product point of view, but a let's get some good technologies out there with good visibility)
- Mr. Gunn
@Cameron: Exactly! I even think having a profile where you can post a pic and see how many papers and comments were published, papers edited, etc.was the very first thing I asked for when I signed up :-)
- Björn Brembs
But it needs to be federated across publishers... :-)
- Cameron Neylon
if authors put in their 'customer' weight, this will go faster, so why not go syndicate :-)
- Claudia Koltzenburg
I think I'll use this paper in my spring thesis class -- this is the main one where I discuss publishing models -- and maybe I'll demo Diigo with this as a class project next to an article that discusses IF.
- Mickey Schafer
While we're on the subject of functionality wish lists, I would also like an embed functionality for PLoS papers. Collecting my publications together but don't want to duplicate copies and reduce googlejuice for the journal - at least not for the OA papers anyway...
- Cameron Neylon
Whilst not a darts-player http://www.flickr.com/photos... , I think Cameron has hit the "triple-twenty" there :)
- Graham Steel
BTW, why isn't there a way to register this thread with the article? Why are we posting here and not on the article? There's got to be a lesson to be learned from this :-)
- Björn Brembs
from iPhone
Done. See comment #4.
- Graham Steel
I've included a link to this thread in a blog post: Article-level metrics getting attention http://ff.im/bGuNY
- Jim Till
+1 Bjoern :-) another question along these lines would be: why does Cameron's intial FF message link to CiteULike and not to http://www.plosbiology.org/article..., or plainly doi:10.1371/journal.pbio.1000242 ?
- Claudia Koltzenburg
Because that was the way I brought the link in. I think that that pointer is appropriate. It is a pointer to the fact that I bookmarked it. Other people linked to the paper directly. Perhaps the issue is that we accidentally aggregated around the "wrong" item to talk about the paper. I'm not sure this is a problem as long as the referral works - its a UI irritation not a problem with...
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- Cameron Neylon
well, not directly, maybe in this ff-thread we're just providing some material for what you say in your paragraph "Technical Solutions to Social Problems", namely: "approaches that gather information from processes that are already part of the typical research workflow are also much more likely to succeed." - even though ff may not be part of 'the typical research workflow' (yet?) - and...
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- Claudia Koltzenburg
That's true, and certainly conversation sparked by the paper. But how to capture that in a way that is useful further down the line might be tough...
- Cameron Neylon
I am still wondering if we would not need at least one metric for each 'scientist type' as described in http://dx.doi.org/10...
- joergkurtwegner
joergkurtwegner -I'm interested to see what tenurometer comes up with re: h-index correction factors for disciplines.
- Mr. Gunn
Put all scientists in jail! - http://bjoern.brembs.net/news...
Yaroslav Nikolaev, Jan Wessnitzer, Paul Dobson and 6 other people liked this
You think 'Open Access' means changing the way we do science? You think "Open Notebook Science" is the ultimate way to do modern science? Let me show you some people who want to *really* change the way we do science.
- Björn Brembs
At all costs do not tell this group about ONS, lest they actually start supporting it. The last thing Open Anything needs is to be associated with these double-barreled douchebags.
- Bill Hooker
oh boy - well that kind of writing is automatically self-destructing anyway
- Jean-Claude Bradley
I already know one person who thinks we need to get behind these guys and 'clean up' science. I told him exactly what Bill wrote - we want to change the way science is done, but not into what they want!
- Björn Brembs
In case some people missed it this is from the Discovery Institute
- Jean-Claude Bradley
How sad.
- Andrew Lang
How I Hire Programmers (Aaron Swartz's Raw Thought) - http://www.aaronsw.com/weblog...
Yaroslav Nikolaev, Meryn Stol, Daniel Mietchen and 7 other people liked this
Much more interesting than the traditional approach, which seems to be a hybrid of the Microsoft and Google approaches.
- Michael Nielsen
The K Chronicles - the global phenomenon of primate change ( seen via http://ff.im/c2Z0y ) - http://www.salon.com/comics...
novoseek, Yaroslav Nikolaev and Jan Aerts liked this
Do Academic Scientists Share Information with Their Colleagues? Not Necessarily - http://www.turkishweekly.net/news...
Yaroslav Nikolaev, Steve Koch, Heather Piwowar and 3 other people liked this
"This is important because it means that the important policy question is not “whether open science” is practiced, but rather is “how open science can be supported in different environments.”"
- Daniel Mietchen
from Bookmarklet
any suggestions for good screencast software (the sort for making videos of computer actions ...)?
Daniel Mietchen, Mary Canady, Dan Hagon and 3 other people liked this
I like Screenflow for Mac but it costs money. Camtasia for PC similarly is highly recommended. Jing and similar are fine for short videos less than a couple of minutes.
- Cameron Neylon
screenr.com is fabulous, runs in your browser, very quick to use, uploads straight to youtube if you want. Has set window sizes which helps you fit your demonstration window to include all the action you want.
- Jo Badge
Try http://www.screentoaster.com/ - also runs in the browser, and is apparently free (haven't tried it because I bought Camtasia earlier, which is pretty expensive).
- Victor / Mendeley Team
What OS? I like gtk-recordMyDesktop on Ubuntu, others recommend Istanbul.
- Neil Saunders
mac osx ... also open to ubuntu for the more technical stuff. browser-based sounds fab! thanks guys :)
- Anna Croft
Jing is cool if you want quick, easy and short.
- Matt Leifer
I like Jing as well
- François Dongier
I use and like Camtasia but it is not free - although the 30 day trial is fully functional - Camstudio is free and might work for recording but not editing
- Jean-Claude Bradley
Try Screenr.com - excellent.
- AJCann
I recommend ScreenCamera because it makes live real-time screencasts on Skype, UStream, messengers, or wherever you can use a webcam. http://www.pcwinsoft.com/screenc...
- PCWinSoft
ISHOWU is quite amazing ..its only US $10 or so. creates very compact H.264 codec using files
- Hari
Is It Time For A Bing/ Microsoft Boycott? - http://www.inquisitr.com/48933...
Yaroslav Nikolaev and Mr. Gunn liked this
only like, since they released it :-)
- Neil Saunders
What is Bing?
- Egon Willighagen
I am still waiting for a P2P search engine... use my FOAF network to find me stuff, and use FOAF-SSL to allow my peers to use my machine as search node...
- Egon Willighagen
It'll end up boycotting itself, no action required.
- Brian Krueger - LabSpaces
It's amazing to me that it's been so long since Google kicked everyone's ass in search that they've forgotten why it happened in the first place. Paid placement sucks. People don't want it. When Google appeared, they appeared during the days of crappy search "portals" like Yahoo and Altavista. Google was a clear winner precisely because they didn't play that game. I can't believe MS actually thinks they can go back to that and have any success at all.
- Mr. Gunn
Linking Open Drug Data to Cheminformatics and Proteochemometrics - http://www.slideshare.net/egonw...
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Anna Croft, Yaroslav Nikolaev, Jean-Claude Bradley and 5 other people liked this
Nice to see you added the image on your thesis at the end - one of my favorite cheminfo pics
- Jean-Claude Bradley
Access denied? : Article : Nature - http://www.nature.com/nature...
Peter Miller, mariana, Duncan Hull and 8 other people liked this
"Every weekday, thousands of researchers around the world access the Arabidopsis Information Resource (TAIR), which contains the most reliable and up-to-date genomic information available on the most widely used model organism in the plant kingdom. But now, to those users' horror, TAIR faces collapse: the US National Science Foundation (NSF) is phasing out funding after 10 years as the data resource's sole supporter (see page 258). TAIR's plight is emblematic of a broader crisis facing many of the world's biological databases and repositories. Research funding agencies recognize that such infrastructures are crucial to the ongoing conduct of science, yet few are willing to finance them indefinitely. Such agencies tend to support these resources during the development phase, but then expect them to find sustainable funding elsewhere."
- Michael Nielsen
SWAT4LS2009 – Keynote Alan Ruttenberg: Semantic Web Technology to Support Studying the Relation of HLA Structure Variation to Disease - http://semanticscience.wordpress.com/2009...
Rafael Sidi, Yaroslav Nikolaev, Nakao M. and Duncan Hull liked this
Liveblog from Nico Adams of the keynote
- Cameron Neylon
See the http://friendfeed.com/swat4ls... for much more coverage...
- Egon Willighagen
Lots more on twitter too http://twitter.com/#search...
- Duncan Hull
Duncan, that RSS feed is actually routed to the FF room :)
- Egon Willighagen
No Journal Access? Email the Author, Colleague - http://scholarlykitchen.sspnet.org/2009...
Yaroslav Nikolaev, Björn Brembs, John Dupuis and 3 other people liked this
That's what we did 10 years ago :) BTW, before you email, first use Google Scholar to find online copies...
- Egon Willighagen
This can work well but I find students are reluctant to contact authors.
- Jean-Claude Bradley
I think the important things here is the difference in sharing ethos in developing countries vs. US/EU. I used to never hear back from people via email, or if I did it took 2 weeks. The References Wanted Room FTW!
- Mr. Gunn
Or just use this Friendfeed group: http://friendfeed.com/referen...
- Berci Mesko, MD
Feed your PLoS t-shirt obsession - announcing the new PLoS store - http://www.plos.org/cms...
Duncan Hull, Bora Zivkovic, Jo Young and 6 other people liked this
Presubmission enquiry or entire manuscript? - http://blogs.nature.com/nautilu...
Yaroslav Nikolaev, Neil Saunders, Mr. Gunn and 5 other people liked this
That's actually quite good to know.
- Mr. Gunn
Ice Age took just SIX months to arrive... not 10 years - http://www.dailymail.co.uk/science...
Eivind, Mekkar and Yaroslav Nikolaev liked this
A tech question -- is anyone using web-based file storage? If so, what company would you recommend as host?
Alexey, Yaroslav Nikolaev, Iddo Friedberg and 5 other people liked this
How big of files are you thinking about?
- Holly Rae
Hell yes. For me, photos -> flickr, audio -> divshare, video -> youtube/vimeo, PDF's -> Mendeley/scribd and google docs for various other bits 'n bobs.
- Graham Steel
SlideShare, SciVee (vids), Scribd (pdfs), Flickr, YouTube, lots of GoogleDocs and Wikispaces will take up to 10Meg misc files
- Jean-Claude Bradley
favorites are dropbox (good file sync) box.net (webdav standard support) drop.io (quick, easy) and wuala (free limit is high). specialized storage by file type such as flickr for images or gdocs for docs is also a good option, and there are some utilities that can help synchronize with these services
- Mike Chelen
Google docs for documents, Mozy for backup, dropbox for sync across computers
- Pedro Beltrao
Junlgedisk for archival, dropbox for "hot" content.
- Deepak Singh
from iPhone
Jungle disk for big files, documents etc. I also use google docs and dropbox for convenience.
- ashish
Ooh - dropbox seems rather handy. Thanks. On Desktop now.....
- Graham Steel
Gspace? https://addons.mozilla.org/pt-PT...
- ovigia
Any specific suggestions for podcasts/sharing?
- Allan Besselink
I use ADrive for pretty much everything. If sharing, will host things on Slideshare, Scribd, Flickr, YouTube, etc. But if it is just for me ... ADrive. Free accounts get something like 50 GB. Podcasts get hosted with Archive.org.
- Miss Elle
Allan, I use vanilla S3 for all my podcasts in combination with Cloudfront for edge delivery.
- Deepak Singh
Dropbox for a collaborative document share. Wiggio.com for inter-institutional share and collaboration tool. I belong to a group that uses a pogoplug, too, which has been a boon (the trick is where to host it).
- Jason Miller
JungleDisk on the Mac - off-site backups of docs + family photos
- 'Mummi' Thorisson
Also a Jungle Disk user -- have a workgroup account with all partners and customers having partitions. Use it for backup, transfer of large files (audio, video, lesson packages) to and from internal people and customers.
- Brian Sullivan
Dropbox for keeping the contents of a directory sync'd across computers & sharing private pics, Flickr for public pics, slideshare from PPTs and Mendeley for docs.
- Mr. Gunn
Thanks so much! Here's a link (though most of you don't need it:-)) that reviews some of these products: http://www.consumersearch.com/online-... -- For me, I am looking to back up everything on 3 computers at home. "Kids" computer used to be mine, and has all the family photos on it -- just 2005 is in excess of 4GB (or so says the flash drive which is full). It seems as...
more...
- Mickey Schafer
mediafire
- ffcode
thanks Mickey you had a good subscriptions list, subscribed to a few of the active folks
- ffcode
Miss Elle: ADrive looks kind of cool, FTP can come in handy
- Mike Chelen
Mickey: if there is 4gb this year, how much data is there in total? it may be worthwhile to also keep local backups, since 8gb or 16gb memory sticks only cost $20-$30, and external hard disk drives are coming down in price too
- Mike Chelen
Mickey - From what it sounds like you want to do, a pogoplug (hardware) might be really great for you. http://www.pogoplug.com
- Jason Miller
Thanks, Mike -- that's basically what I was thinking. Maybe a larger GB flash drive for each year, but a combo of external hard drive and online back up for everything. The kids' computer needs ghosting...I'll be able to get Windows 7 for about $12.00 in a few weeks (faculty price) and will likely use it to restore that computer to better functioning.
- Mickey Schafer
from email
Jason, what a totally cool device!
- Mickey Schafer
from email
For those who'd still like to explore, the suggestions made here are at http://delicious.com/msscha... -- features to look for seem to be amount of free space (ranges from 1GB to 50GB), share features, file syncing (only a couple do that), upgrade service cost (in all, much less expensive than I expected), mobile apps, and whether there's a desktop component (I don't get this...
more...
- Mickey Schafer
it is a mistake to keep you personal dta on servers on web first it is very difficult to delete that data and other there is a possibility that data can be stolen
- ffcode
@Jason is there a pogo plug available in UK?
- Anna Croft
@AnnaCroft - Not sure. Id' poke around on their site to see. On it, I saw what looked like a portal to twitter, and I saw some German tweets. That would make me hopeful that the product is available outside the US. Please post what you find out.
- Jason Miller
Anna -- I've also seen French tweets -- here's the product spec page: http://www.pogoplug.com/meet... -- voltage specs are "Power requirements: 100-240V, 50/60HZ" -- the rest relates to OS, internet, browsers, etc so should cross the ocean just fine.
- Mickey Schafer
@Jason/Mickey ace - although I'll probably wait until next year to get one, when I'm in the US ... Update: just read on one of the websites that it will ship to Europe in 2010 ... http://www.pogoplugged.com/forum...
- Anna Croft
ffcode: it's important to keep multiple backups on local and remote systems, as well as on several company's servers if possible. a good backup service should include client-side encryption (wuala does for example) and if not then it is worthwhile for users to learn how encrypt data themselves
- Mike Chelen
Jason: does pogo plug have much built-in storage or is it best to attach an external drive as well?
- Mike Chelen
Mickey: flash drives are great for portability, still external hard disks are the best value for the size, for example 500gb for $100 http://www.newegg.com/Product... though online copies are important since a single drive could get lost or damaged at any time
- Mike Chelen
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