It's utterly unsurprising to me that the details of a bunch of personal and professional emails are a little ugly. That's probably true for almost any of us. Who wouldn't, in their reasonably private communications, hurl a few barbs at people who've been relentlessly attacking your work and your person for years, tying you up with constant frivolous data requests, and in some cases (as with Wei-Chyung Wang) having people threaten to have you arrested for fraud? I'm glad I don't work in that field.
- Joel Webber
The Nature review raises a good point: What kind of support will scientists need to cope with frivolous FOIAs and other attempts to legislatively hinder their work?
- Mr. Gunn
Thanks for the Nature link, Hisham. The ending paragraph sums it up well, I think: "In the end, what the UEA e-mails really show is that scientists are human beings — and that unrelenting opposition to their work can goad them to the limits of tolerance, and tempt them to act in ways that undermine scientific values. Yet it is precisely in such circumstances that researchers should...
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- Joel Webber
this is very cool. thanks for sharing, Nils.
- tim
I especially like the "Consensus conclusion" at the bottom: "Man made CO2 emissions are driving climate change this time. We don't claim that greenhouse gases are the major cause of the ice ages and warming cycles. What drives climate change has long been believed to be the variation in the earth's orbit around the sun over thousands of years."
- Nils Reinton
"In a normal warming cycle, the sun heats the earth, the earth gets hotter. The oceans warm up releasing huge amounts of CO2. This creates a green house effect that makes warming much much more intense"
- Nils Reinton
"That's why humanity's release of CO2 is so perilous. We're out of step with the natural cycle.And we haven't even got to the stage where the oceans warm up."
- Nils Reinton
It arrived today. Have a stack of PLoS t-shirts in various sizes/designs. I now need to think of a cool way to give them away to folks that will wear 'em (I already have 4) . Any ideas?
- Graham Steel
Wore mine from #sbcPA yesterday. All the non-science peeps needed explainations.
- Jim Hardy
@ Ricardo, (you is as subtle as a brick shaped object) what size are you? I'll trade you one for a Mendeley one :)
- Graham Steel
Since I've yet to hear back from Dave M, plan T is now underway. Here are the shirts http://www.flickr.com/photos... Top row middle is now winging it's way off to Dr H Gee of Nature.com http://twitter.com/McDawg... even though, this might be rejected via i-stone !!. Ricardo V (shirt size yet to be disclosed) might have another (he has 12 hours left to comment) , so there are still four avaliable for free from me as matters stand. Code = ask politely/candidly. #PLOS
- Graham Steel
After what I suffered in the link posted above, I think I would be extremely happy to have a new PLoS T. Thanks!
- Paulo Nuin
Paulo, one can still do S, or L or XL. (One XL one went to someone in Cromer). Name your size and it will be shipped. ONLY three left now and you folks must try harder to convince me give this stuff away, err convincingly. (Each pack will contain other PLoS goodies too).
- Graham Steel
I will take the L. Can you send me an email with whatever you need? Maybe it's too far for you to ship :-)
- Paulo Nuin
And the L will be shipped to Paulo later in the month. So what's left? After a re-count, 2 S and 1 XL. Rather than simply giving the last 3 away in the manner thus far, one shall devise a competition and three lucky winners will get the last of the pickings.
- Graham Steel
Hmmm - somehow this comment thread dropped off my first few FF pages... Good luck with the competition, I might be a M but I'm not a S, so I'll pass :)
- Allyson Lister
Competition Idea ! As matters stand, me thinks it's boiling down to some form of pub quiz thang down in the, err pub after Science Online London http://www.scienceonlinelondon.org/blog... It will last for 5 - 10 mins and will be called "Who's Round Is It Anyway" Whilst the rules will be made up as we go along, the Host (not me) will ensure 'fair-play'. Cheating will be allowed within reason. 10 Prizes up for grabs inc. a priceless mystery top prize !! #solo09
- Graham Steel
Graham - I'll happily take you up on the trade-for-Mendeley shirt! :-) Yes yes yes!
- Victor / Mendeley Team
Game on. Must dash - I have a train to catch...whooosh
- Graham Steel
I recently posted on researchblogging.org and have published in PLoS ONE. Does that qualify me for one of the red or black ones in size M?
- Karen James
Did I read Mendeley shirt? (am actually wearing one of my PLoS One shirts right now...)
- Björn Brembs
By the time I got round to playing "Who's Round Is It Anyway" most folks had gone, so I adopted a new strategy under the circumstances. In the end, the priceless mystery top prize was won (at random I hasten to add) by Brian Kelly:- http://farm3.static.flickr.com/2664... On Monday, 2 shirts went to Victor and Jan @ Mendeley. Thanks guy's for the Mendeley shirt in return...
- Graham Steel
"The Personal Genome Project is an open-ended research study that aims to improve our understanding of genetic and environmental contributions to human traits. We are enrolling members of the public who are willing to share their genome sequence and other personal information with the scientific community and the general public."
- Shirley Wu
from Bookmarklet
I'm debating whether to apply for enrollment. Obviously, the open aspect of it is very cool. But this isn't kidding around - medical history and personal information become public domain (CC-0!): http://www.personalgenomes.org/public.... It's not an extension of yourself going open (i.e. your research), it's _you_... and I need to think a little more about the implications.
- Shirley Wu
Yeah, it's why I haven't done it yet. Just haven't had the time to think through the implications
- Deepak Singh
But your name will not end up in the CC0 data, will it? Why should I care if my digital copy ends up in that data set if no one would be able to link that to me? Got to read the ToS right now...
- Egon Willighagen
I suspect that the level of detail of information allows one to infer who it may be. Specially medical information. Also, from what I've seen, they take head shots of each person (with a little measuring tape on the forehead for scale!) :)
- Ricardo Vidal
I signed up for more info in the first phase, but have been sitting on my invite. As cool as it would be, I'm not sure the risks outweigh the rewards, at least until better protections are put into place. GINA is a start, but there's much work to be done.
- Chris Miller
Egon, I've spoken to enough people who say that you don't need a name with whole genome data to figure out whom it belongs to. I will likely end up doing it since I don't care even if they had my name up there, but just from the conceptual standpoint, it's good to understand.
- Deepak Singh
Right, there is definitely more than enough information to connect you to your data. In fact, just the zip code, sex, and DOB are enough to identify 87% of people in a de-identified database (saw this stat yesterday, can't remember where), and for PGP you've got a fairly complete medical history as well as photos. I'm pretty torn about this because I really think a large, open database...
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- Shirley Wu
You also have to worry about the privacy of your kids, I think, even if they're not born yet...very frustrating and confusing issue!
- Steve Koch
I signed up months ago and have passed the first qualifying tests. On to level two, for consideration as one of the PGP100 or PGP1000 if I don't make the first cut. I have no fears of my DNA being exposed.
- Jim Hardy
@Jim, I assume that means you also have no problem with people knowing your medical history, including, hypothetically, potentially "too much information" about, say, that anal fissure you had a year ago or your chronic irritable bowel syndrome?
- Shirley Wu
Right, Shirley. It's mainly the fear of losing insurance that deters me. Without a good social safety net for healthcare in the US, I can't justify releasing information that could prevent me or my future offspring from getting quality medical care.
- Chris Miller
I wonder how many friendfeed and Facebook users like me have made a conscious decision to divide professional and private social networking between these respective services.
Yeah, which is why I do not want a Facebook account... Facebook, MySpace, etc, is for non-working contacts... FriendFeed I use for collegues, not 'friends' or family...
- Egon Willighagen
rvidal on There is a growing consensus (at least in Silicon Valley) that the information age is about to give way to the era of synthetic genetics. - http://www.reddit.com/r...
"I understand Craig Venter's importance in the Human Genome project, however it was a massive project done in conjunction with a very large group of scientists, not just himself. I do believe he's done quite a lot with his "fame" and fortune. Namely his expeditions and work with marine/ocean microorganisms. However, as I stated before, in my opinion George Church has done more hardcore and groundbreaking science."
- Ricardo Vidal
Venter's ego really gets in the way. No one really likes him in Rockville and pretty sure he's banned from Bethesda. Knew a lot of people who worked for him. He took credit for everything. George Church is an unassuming, Professor-type and much more likable. Probably a much more skilled scientist, too.
- Jim Hardy
Overheard regarding papers published in PLoS ONE - "it was rejected somewhere else", "The bar is 'not crackpot'", "people publish in CNS because that's where the attention is, I don't know anyone who reads PLoS ONE", "The reputation of the journal is a good way to filter out noise". Is there truth to these claims? Discuss.
Almost all papers, in all journals, have been rejected from somewhere else. Our bar is "is it science, is it conducted properly, is it reported properly, and do the conclusions follow the data etc" - the bar is not "is it sexy, or impactful, or a major advance". At the same time, we are not CNS - as we are not selective. CNS combined publish just 5,000 articles a year between them but...
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- Peter Binfield
Peter, I certainly don't disagree with what you're saying and think PLoS ONE is valuable and innovative. But I was wondering if these negative judgments are pervasive (FF/twitter is a bit of an echo chamber and the real world can be a shock sometimes) and if so how to change them. There are those who argue that CNS has high precision even if they miss some good papers and so it's more...
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- Shirley Wu
The problem with echo chambers is that the Internet echoes forever; and forever is a long time. We just need to push out as much positive info as possible to try to combat any negative comments which may have been made rashly, or in error, but which get re-referenced for eternity. Our article-level metrics program will presumably show people whether any given paper in PLoS ONE is 'high'...
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- Peter Binfield
There's this thing known as FUD. Happens when someone sees their status eroding. The whole PLoS articles are not as good is just that, FUD
- Deepak Singh
Indeed, it may be fear, uncertainty, doubt. It may also be lack of information and hard data. We are going to fix the latter. Certainly, people are voting with their feet - we have 37,000 published authors in under 3 years, and people are publishing with us in ever increasing numbers (http://poeticeconomics.blogspot.com/2009... )
- Peter Binfield
"it was rejected somewhere else" - perhaps. This is hard to tease out, but I have a feeling that most of the manuscripts that come to PLoS ONE have never been submitted elsewhere
- Bora Zivkovic
"The bar is 'not crackpot' - good bar, IMHO. Why is any other bar necessary? Think. Really.
- Bora Zivkovic
"people publish in CNS because that's where the attention is, I don't know anyone who reads PLoS ONE" - who still reads journals? Srsly? Don't people search online for papers they are interested in? Do physicists read biology papers when their copy of Nature arrives? No, they read Nature for "news and views".
- Bora Zivkovic
"The reputation of the journal is a good way to filter out noise" - perhaps a century ago when every scientist could read every scientific paper and understand it, and every scientist was a 'Victorian scholar' who felt the need to keep up with ALL of science. Today, you read papers in your narrow field - you find them online. News from other sciences you can find in pop-sci magazines, on blogs, etc.
- Bora Zivkovic
@Bora, I think there are still a fair number of people who don't search for papers necessarily, but browse TOCs, and so only browse the journals they're familiar with. During the discussion, someone asked, baffled, "but there are already so many papers [without PLoS ONE publishing so many more], how would people find ones of interest to them??"
- Shirley Wu
A related discussion - based on a correspondence in Nature by a proponent of the views Shirley cites - is at http://ff.im/4GWlM .
- Daniel Mietchen
@Shirley - although ToCs are certainly an important discovery tool, any publisher will tell you that the vast majority of their usage comes in from Google (who then read an article, and leave again to run another search)
- Peter Binfield
@Peter, that would make sense, but I'm wondering if that necessarily translates into Google being the majority of people's preferred method for finding papers. At least the impression I got from folks in my lab was "so many papers, so little time" and so they're skeptical of anything that adds to the glut of papers without clearly adding value. They might agree on the principle that...
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- Shirley Wu
They also think, "if [a peer reviewer] didn't make a value judgment on whether this paper is significant, why should I waste time reading it?"
- Shirley Wu
"I'm wondering if that necessarily translates into Google being the majority of people's preferred method for finding papers" - Good point. I guess you would want to measure time spent on page by people who come via the 2 (or more) routes to see how targeted their interest was
- Peter Binfield
@Shirley - Then they are admitting that they would prefer one (or perhaps 2 or 3) other people to decide what is important for them, and so decide on their behalf what they should be reading. Doesnt sound like a very informed way to filter imho...
- Peter Binfield
@Peter, more that a million people access papers through google 25% of the time will mean that publishers see google as a huge source of traffic, but doesn't mean that people think of google as their preferred method to find _NEW_ papers.
- Shirley Wu
@Peter, well, it's using expert opinion. We all use it to some extent in areas we're not familiar with. If people aren't that internet savvy or aren't that organized, they depend on other people or name-brand journals to bring things to their attention. Also, commenting on papers hasn't really taken off yet - just a matter of time, probably - but it just means that the post-peer review process hasn't really proven its value yet.
- Shirley Wu
"but it just means that the post-peer review process hasn't really proven its value yet." - indeed, and we DONT view our efforts as post-pub peer review. We view it as a new way to do post-pub evaluation / filtering / discovery.
- Peter Binfield
Oh, the other thing that someone mentioned was "comments are valuable" - meaning "why would I give away my intellectual capital?" People are willing to share their comments with their labs or close colleagues, but not to the public or to the general scientific community. Is this just another mindset we combat with positivity and action? How to combat the vicious cycle of "no comments, so no value", "no value, so i won't comment"?
- Shirley Wu
"Is this just another mindset we combat with positivity and action?" - I would say we combat it by showing them the power of being open about these things. For example, social bookmarking only works when everyone shares their bookmarks - in this example there is a clear benefit to both contribute and use. If people realised that by leaving comments they would be advancing science;...
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- Peter Binfield
@Daniel, ah yes, I remember that thread now. Unfortunately I think many scientists are similar in mindset to the letter writer. They don't know about or understand new ways of receiving content, which might seem strange to those of us here, but there are many more people out there than are in here.
- Shirley Wu
Also, you could use the same argument about peer review: "My time and thoughts are valuable, why should I do peer review". Apparently academia feel that the quid pro quo works in that situation at least (and that is done anonymously!)
- Peter Binfield
@Peter, true, though I think some of that is tied to the reputation of the journal again - being a reviewer for Nature > reviewer for PLoS ONE (in their eyes), editors know them, they can talk about it and gain status. They get tangible and subtle career boosts. Whereas commenting on papers online and publishing in PLoS ONE doesn't get someone tenure (yet). "It would be very brave and...
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- Shirley Wu
Peter - given the problems that journals have finding suitable reviewers, I would hesitate a bit calling that a working system.
- Daniel Mietchen
Another link that may be useful reposting here: Pubfeed at http://pubfeed.cs.toronto.edu/ basically allows you to treat the whole web of scholarly articles like a TOC alert (just a bit more customizable) and pipe that into your preferred feed reader.
- Daniel Mietchen
@Shirley - please dont forget that there are 25,000 journals in the world and millions of papers published per year. CNS is just 3 titles, and if you lump together all similar titles (highly exclusive, professional editors, well known brands, conferring 'bragging rights' on anyone who works with them) then you are still talking about just a handful of the titles, with a small percentage of the content. We need a system that works for everyone, not just a small sub-set
- Peter Binfield
@Peter, oh, I'm well aware, just parlaying bits of an impromptu debate I had earlier today with people who don't see the value of venues like PLoS ONE. These are all arguments they make, and while I don't agree with them, it is tough to convince people
- Shirley Wu
You could try asking them exactly how many downloads their last paper in a 'high impact' journal got...
- Peter Binfield
Fair enough, but you know, I really don't think they think about that. They think "what will be in my CV?" and they think any journal that is somewhat competitive [includes other PLoS journals, BMC journals, etc] looks better than one that accepts anything that's methodologically sound. Again, not my view, but perhaps one that is held by many. Do people list # of downloads on their CV for publications?
- Shirley Wu
They dont, because they dont have the data. However, people do list if their paper was rated by F1000; or if BMC designated it a 'highly accessed' article. So I think they will start to say "this paper was downloaded 5000 times in the first 3 months which put it in the top x% of all PLoS ONE articles, the top y% of all PLoS articles, and the top z% of ALL articles" (when the rest of the world starts quoting this data)
- Peter Binfield
Ironic isn't it; it's not a battle with the publishers, but with other scientists! I overheard a conversation yesterday concerning choice of bioinformatics journals. It centered entirely around impact factors and at one stage someone said "I think BMC Bioinformatics is online *only*" - as though that were a bad thing.
- Neil Saunders
And it's clear that anyone who mentions "filtering noise" simply is not using the web effectively. Presumably their web use is limited to search, after which they print PDFs and go away. Concepts that seem simple to us - RSS, feed readers - are unknown to them.
- Neil Saunders
I think of it as trying to set up a social experiment. If I'm right and a more cooperative model can produce better science than the current hypercompetitive structure, then over the next decade or so, facility with new methods and metrics that center on Open practices will provide a competitive edge for some researchers, and unwillingness to change will put others at a disadvantage. We...
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- Bill Hooker
Good thoughts Bill. It's not enough to say "this way is better" just because we believe it to be. We have to demonstrate that it's better - or find out that it isn't.
- Neil Saunders
And isn't that the scientific way?
- Deepak Singh
from IM
"I think there are still a fair number of people who don't search for papers necessarily, but browse TOCs" Could it be that those are the people publishing in CNS and miss the most important papers for their work? http://bjoern.brembs.net/comment... It's only one example, as anecdotal as it gets, but it shows two things: 1. CNS 'quality' is merely correlational and highly noisy....
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- Björn Brembs
My environment is rather positive about PLoS ONE. We all know about the difference between relevance and quality. While many PLoS ONE papers might not be of widespread interest, the review process is of comparable quality or better to smaller conferences and e.g. high volume BMC journals. Other journals have severe issues with reviewer quality these days, and it seems to become worse.
- Roland Krause
I'm still wondering about the degree of scalability of post-publication (significance) peer review systems. Is it really realistic to think that once (all) journals go OA and implement such a system that the entire scientific community will benefit? Assuming that it's "fair" for all journals to get equal amount of attention from "scholarly feedback communities", how can we encourage...
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- Wobbler
I agree with Bill Hooker's statement just above. Those who echo Shirley's original quote will be at a disadvantage, which means better odds for the Shirley's of the research world.
- Jason Hoyt
I often say something along the lines of what Bill said. The environment is changing. To succeed in the new environment, one has to change not just one's publishing habits, but also rethink how to do research and how to write it. Thus, people who think about it early on will be able to gain advantage over people who are still stuck in the old ways of doing things. As the new environment...
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- Bora Zivkovic
18 min, no PowerPoint, no complex diagrams. Scientists attempting to better connect with the public should get on YouTube, watch the TED talks and learn a thing or two!
- Noah Gray
from iPhone
I thought it was a pretty funny little piece. I liked it.
- Jim Hardy
I also liked the podcast, for it's content. I just couldn't stand the way the guy was talking. Sounded like he was reading and not very fluidly. I probably read the same but then again, I don't host a podcast.
- Ricardo Vidal
"Over the past year, Harvard’s endowment has collapsed (it lost $8 billion between last July and October), its fundraising has declined, and its construction cranes have been idled."
- Alexey
from Bookmarklet
Interesting. Construction continues like mad at Hopkins.
- Jim Hardy
Still building at Univ of Michigan as well despite the dire straights of the state...just doubled research space with buy of Pfizer campus (30 buildings!!)
- Carey Lumeng
"New research shows that the vast majority of genetic samples used in large-scale studies come in the form of blood. However, blood and tissue cells do not match genetically, calling into question the genome-wide association studies that have assumed DNA is essentially identical in every cell in the body."...
The paper this references is "Gottlieb B, Chalifour LE, Mitmaker B, et al. BAK1 gene variation and abdominal aortic aneurysms. Human mutation. 2009;30(7):1043-7."
- Colby
"As for the impact factor, the 2008 numbers were released last month. But rather than updating the PLoS Journal sites with the new numbers, we’ve decided to stop promoting journal impact factors on our sites all together. It’s time to move on, and focus efforts on more sophisticated, flexible and meaningful measures."
- Abhishek Tiwari
Yes! Finally, someone with the balls to take affirmative action.
- Neil Saunders
I guess it would help even more if PLoS requested not to be indexed at all... that way, the more journals who are not 'measured' the meaningless the factor for other journals becomes too...
- Egon Willighagen
maybe, if it weren't for the fact that many scientists use WoS as a general purpose research database. I think one still goes with the other - JCR with WoS inclusion
- Christina Pikas
"On the new Web site, you’ll find basic information on the scope and value of taxpayer access to publicly funded research along with primers and details on the NIH Public Access Policy, the Federal Research Public Access Act, the Conyers bill, Autism Speaks’ research access policy, and the explosion of public access policies around the world".
- Graham Steel
i'm skeptical of such approaches, because they seem to be attempting to reinvent the wheel and the chances of providing as well designed an interface as youtube seems slim. i'd like to be proven wrong though :)
- Mike Chelen
BWHAHAHA, try watching a video and enjoy the "Reported attack site" warning... Also, have to agree with Mike. The me too approach for such a small niche can't be profitable. And why are they hosting their own videos?! YouTube will host them adless for free!
- Brian Krueger - LabSpaces
Niche sites can charge more for ad space (highly targeted), but ultimately I think Mike and Brian are right - it'll be tough to cover the expense of hosting their own content. Could always try going for the donation approach ala Wikipedia, given the site has high educational potential (parents eat this stuff up). Either way, a nice find - it's fun to geek out to scientific videos!
- Thomas Sharpton
the bandwidth and storage is relatively cheap, it's the programming and design work that are time and resource intensive. i'd like to see focus on the great value of aggregating videos on science subjects, without diverting effort to the technical aspects which are already done by sites such as youtube
- Mike Chelen
The fourth International Science Foo Camp (scifoo) 2009 has just concluded. Here are some very brief and incomplete notes and links from some of the sessions on the second day (Saturday), see the scholarly kitchen for a report on the first day. With seven parallel sessions, most people at this event miss most (six sevenths) of the sessions, but here is a summary of the (one seventh) sessions I managed to get to: (actual link at http://duncan.hull.name/2009...)
- Duncan Hull
from Bookmarklet
You say that "92% of NIH R01 grants have to be hypothesis-driven". Is 92% a random large percentage or was this some quota defined somewhere ?
- Pedro Beltrao
Hi, Andrew! Who was there? Titles of many sessions! (photos of the board with titles would work). Your favorite moments?
- Brian Malow
I'd like to know what the dominant themes of the year were. For example, last year aging researchers had an unusually high presence. What stuck out?
- Benjamin Good
There was a Google Wave demo by Product Manager Steph Hannon and a session organized by Cameron. And every SciFoo participant got a Google Wave account. But I expected more buzz.
- Martin Fenner
@MrGunn, you just have to know Attila to get the Golden Ticket. Oh wait, I guess you do ;-)
- Jim Hardy
I'd like to know if it's only by invitation unconference and all people there widely support open access/science, why SciFoo don't get own YouTube channel and give people who didn't attend the possubillity to watch all of talks and presentations as TED does?
- Alexey
from iPhone
If they do that they would break the bond among the members of the 21st century intelligentsia.
- Paulo Nuin
to Paulo - How will SciFoo members benefit from keeping it secret and maintain intellegence inside instead of make it open and educate the public?
- Alexey
from iPhone
@Alexey My take on SciFoo is that it's not really meant to spread great ideas to a wider audience like TED - rather it's just a way of getting a bunch of smart people together and seeing what cross-pollinates. Sometimes those smart people prefer to speak behind closed doors, it's up to them.
- Euan
@Alexey One thing is that some policy makers want to have things 'off the record' so they can speak more freely. People were asked not to live blog or take photos without permission. I can see why they need it at this type of conference.
- Andrew Lang
Lots of SciFoo sessions don't even have presentations. This is more of a way for small groups of people (some sessions were 3-5 people) to get together and have informal discussions. TED on the other hand has very well prepared presentations, with thousands of people in the audience, plus millions of people watching the videos online. It's a completely different kind of conference.
- Amit Patel
@Amit - but I thought they have the same point - "ideas worth to spread" whatever the format is. But turned out that's not the case for SciFoo, even most of people there advocate "openess" concept.
- Alexey
from iPhone
Some SciFoo members actually posted their presentations for public - Berci at Scienceroll for example. That's great!
- Alexey
from iPhone