Category Archives: Science Reporting

Stem Cell Experiment in The Scientist

On The Scientist website you can find their new experimental feature – an article with questions to the public that will be used in forming the articles for the print version of the magazine next month. Go see Special Feature: Stem cell cloning needs you: In a unique experiment we’re inviting you to participate in a discussion that will help shape our next feature on stem cell research and post comments:

We’re inviting people to give us their thoughts and questions on whether we need to rethink the scientific and ethical approach to stem cell cloning to help shape a feature that we’ll be running in the June issue of the magazine. […] we’re treating this more as an experiment in user participation, which we’d love to do for more articles in future if people respond to this.

The three main questions are:
Is the nuclear transfer challenge one of understanding or technique?
Is it time to reevaluate the ethics of stem cell cloning?
Does stem cell cloning need new terminology?

So, go there and post comments. So far, there are only 17 comments and the thread has already been hijacked by embryo-worshippers. It would be really nice if people could go there and actually address the issue and try to answer the questions. Adding a comment is easy with no special registration hoops to go through. Hey, if you don’t have time to write multiple long comments, you can always blogwhore: post links to your posts in which you have already answered these quesitons in the past.

Open Science On Marketplace

And in the marketplace. Jean-Claude Bradley was one of the people interviewed for a segment on Open Science on NPR’s Marketplace this morning. You can read the transcript and hear the podcast here. Thanks Anton for the heads-up.

In Less Than An Hour! ‘Galapagos’ on the National Geographic Channel

I hope you see this on time to tune in.
Hat-tip: The Beagle Project Blog

Science In School

The fourth issue of Science In School online magazine is out. It is full of cool articles. Let me just point out a couple:
Eva Amsen wrote about Science Fairs.
There is a nice review of Kreitzman & Foster’s book Rhythms of Life: The Biological Clocks That Control the Daily Lives of Every Living Thing.
Finally, how to use the movie ‘Erin Brokovich’ to teach about chemistry and environment.

EurekAlert! update

I got my rejection letter from EurekAlert earlier today. Apparently, the wording of the letter is somewhat different from what Hsien Li got a few days back and she has now posted both versions for you to compare.

See the Future (of science publishing online)

Earlier today (or was it late last night?), I made separate posts about new work on aquatic microbial diversity, on the copyright issues when reporting on science on blogs and on general relationship between science publishers and blogs. Now, via Dileffante, I have learned about a combo of all those questions: when you are dealing with an enlightened organization, such as PLoS, magic can happen. Jonathan Eisen, author of one of the microbial genomics papers has, with no fear of copyright infringement, copied the entire paper on his blog. It is a first, isn’t it?

Using published images from scientific papers in blog posts

Pedro did some digging to figure out what are various journals’ policies regarding use of images – figures from the papers – in blog posts. It is all very vague and most journals do not have anything specifically targeting online republication, but the Fair Use rules should apply.
I have often used images from papers in my posts, usually only one, sometimes two from a single paper, which should be OK under the Fair Use system. In some cases I used figures that are many decades old, reprinted in every book and textbook in the field, used in every chronobiology college course in the world, and seen many times on slides at conference talks. Such images are now informally considered a common property – they are the icons of the field.
I have used more than 1-2 figures from a paper ONLY when I wrote posts about my own papers. But I do have the originals so I can always claim the ownership, or at least state that they were “redrawn after” an image in the paper (who cares what is redrawn after what and which image chronologically came first?).
Anyway, what do you do? Do you use sites like Free Biomedical Images?

Are we Press?

Hsien reports that the CEO of b5media (organization that hosts her blog) left a comment on Panda’s Thumb (why not on her blog which is, after all, a b5media blog?) in which he states that:

All it takes for us to issue bloggers accreditation is that we – are you ready for this? – issue them press badges and register those badges with one of the two dozen journalist associations in north america.

That’s not how it sounds from what the AAAS person said, but OK, we’ll see how it all develops.
So, if I want to get a paper that is under the embargo in order to have sufficient time to read it and have a post written and ready to go as soon as the embargo expires – do I just ask SEED for a badge? Is it that simple? Somehow I am still skeptical that AAAS and EurekAlert would buy it. I’d like for someone to explain in a little more detail with a little more clarity, please.

More on EurekAlert!

Regarding my yesterday’s post about EurekAlert! dismissing blogs as irrelevant and refusing to disembargo articles to bloggers, I suggest you read what Reed Cartwright wrote about this.
If we all – hundreds of science bloggers – simultaneously go to EurekAlert! registration form and request being taken seriously (additional e-mails with links to appropriate articles about the importance and power of science blogs can also be helpful), perhaps they will start scratching their heads and rethink their position. I just did it myself.

EurekAlert disses blogs

EurekAlert which is run by AAAS is a useful and timely (though not foolproof) source of science news that many science bloggers use to keep up to date on what’s new. However, they seem to be behind the curve in at least one way – they categorically do not disembargo the papers to blogs of any kind, not even blogs affiliated with scientific or journalistic organizations. How do they think they will start entering the 21st century and remain competitive?

Wow! How does one use ‘visual analogue scale’ over the phone?

But, apparently, that is the least of the problems of this study of sexuality in West European menopausal women.
BTW, a “visual analogue scale” looks like this:
vas1.jpg
You jot a mark where you feel is the best spot that reflects your answer. The researcher than uses the ruler to put a number on it. Perhaps once iPhone is out in July, this kind of research will be possible.

Will ‘Beagle’ sail for the Darwin BiCentennial?

darwin.jpgDarwin Day – his 198th birthday – is coming up soon, on February 12th. Are you planning on writing a post on that day?
Last year I put together a linkfest of all the notable blogospheric contributions for the Darwin Day. Although the number of science blogs has increased greatly since then, I intend to make this year’s linkfest as well. I’ll use Technorati and Google Blogsearch to find the posts, but you can make it easier for me by e-mailing me the URL.
Don’t forget that two years from now – the 200th birthday – there will be many celebrations around the world. There will be conferences. There will be new books published. Special editions of magazines. Media coverage of various kinds. Probably a blogospheric frenzy of some sort.
And, with your help, there will be a replica of the “Beagle” sailing around the world, re-tracing the route of its 19th century namesake, carrying around scientists, teachers and journalists who will be doing original research, comparing today’s biodiversity with that described by Darwin on his voyage, reporting about it in real time via various modern communicaitons technologies, and – since it is a small ship and nobody can act as dead weight – pulling the ropes, hoisting the sails, cooking the meals and cleaning the deck!
Beagle%20plans700.jpgThe highest bid so far is still $100. If you donate more to the project by the end of this 10-day drive (today is the 7th day), the book will be yours!

Congrats, Phil

First, PZ, now Phil Plait (aka Bad Astronomer) – the science bloggers are starting to invade the pages (online and hardcopy) of Seed Magazine. The lines are blurring. The old media model is crawling slowly towards the ash heap of history….

Reality will bite you if you choose to ignore it

Alan Sokal (famous for attacking the Lefty postmodernist abuse of science in the 1990s) and Chris Mooney (famous for attacking the Republican War on Science in the 2000s) sat down and wrote an excellent article in LA Times that came out today:
Can Washington get smart about science?
The article gives a historical trajectory of the problem, how it moved from political Left to the Right and what the new Democratic Congress is doing and still can do to bring back the respect for science, or for that matter, the appreciation for reality (which, no matter what the Bushies wish, they cannot make out of thin air):

For, in the end, all of us — conservative or liberal, believer or atheist — must share the same real world. Antibiotic-resistant bacteria do not spare deniers of evolution, and global climate change will not spare any of us. As physicist Richard Feynman wrote in connection with the space shuttle Challenger disaster, “nature cannot be fooled.”
To avoid nature’s punishment, we must take steps now to restore reality-based government.

Much more eloquent and up-to-date than this related, but old rant of mine.

Beagle Project Update

I guess I will bug you about this for the next ten days – my personal pet cause if you want. No takers yet….
Here is the e-mail newsletter about it I got today:

Dear All,
Beagle Project updates:
• We are now a UK registered company and have applied for charitable
status; now that we officially exist and are accountable we have
started fundraising,
we have paypal donate buttons on the
Homepage and weblog page:
www.thebeagleproject.com
www.thebeagleproject.com/beagleblog.html
we’re asking individuals for a Darwin (£10) or a Jackson ($20 – he was
US President at the time of the voyage. Corporate sponsorships packs
available: email me.
• Our profile has shot up following recent write ups on the popular
American science websites Pharyngula and A blog around the clock here:
http://scienceblogs.com/pharyngula/2007/01/the_beagle_project.php
and
http://scienceblogs.com/pharyngula/2007/01/miss_prism_has_a_brilliant_ide.php/
and here:
http://scienceblogs.com/clock/2007/02/help_fund_the_beagle_project_a.php
and several good fundraising ideas outlined on our beagleblog here
http://www.thebeagleproject.com/2007/01/good-people-good-will-good-ideas.html
• TV interest: lots of it, especially from stations from outside the
UK. Bigwave TV who specialise in science and natural history
programming have shot a promotional film about the project – contact me
if you’re interested.
• We have had some tremendous free advice from PR and fundraising
professionals whose hourly rates would make your eyes water and we’re
now recruiting admin support so we can step our efforts up still
further.
• We are working towards developing the science and education aspects
of the programme, bringing professionals in to advise and manage. BUT
the priority right now is fundraising for the build. We need £100,000
(well £98,500 after the last three days donations) by April and £3.3
million in 14 months if we are to have a replica HMS Beagle sailing and
celebrating Darwin in 2009. Ideas and contact which may lead to
sponsors and donations welcome.
• And finally, a small but necessary rant for which I make no apology.
This is a photo of the replica of HMS Endeavour entering Whitby
harbour.
endeavsml%20copy.jpg
The estimated crowd in town on that day: 20,000. James Cook learned
his seamanship in Whitby, the original Endeavour was a Whitby built
ship. Yet this replica was built in Australia, because a British
attempt to build a replica HMS Resolution (another of the Whitby built
ships on which Cook circumnavigated the globe) had collapsed amid
shrugging British indifference. I don’t want that to happen to Beagle:
the build of the Beagle in Britain could be the story that keeps
interest in Darwin200 bubbling away in the media and (especially) gets
young people interested during 2008 (I’m a youth sail training skipper
and regularly attend the Tall Ships Races – square riggers fire young
people’s enthusiasm like little else). The launch will be a headline
story and its arrival in the Galapagos, sailed by a crew of
international young scientists will be an image that goes round the
world. And the Beagle will science, especially the teaching of
evolution, a legacy for the ship’s 30-odd year working life. There are
just 741 days until 12 February 2009 – we can have a replica HMS Beagle
in the water by then. It will take three months to have the plans
approved and 14 months to build. But for that to happen we need your
enthusiasm, donations, overt support, contacts and assistance right
now. Not in 2008, or 2009.
Have a look over the newly poshed-up website: if you run a website or
weblog, please feature us, link to us and help spread the word.
Forward this email to people you think may be interested and if you
think they should be but aren’t interested enough, light a fire under
them. 2009 will be really missing something if there is a Beagle
shaped hole in it. The last couple of days have really (temptation
use corny wind/sail sailing metaphor…resisted) raised our profile and
interest, especially in the US and I’m keen that we keep the momentum
up and turn this is practical offers of financial support, advice and
media coverage.
Regards,
Peter McGrath
Trustee, project co-founder, website designer.

Help Fund The Beagle Project – and have fun doing it!

I first saw about this on Pharyngula the other day and I think it is a majestic idea! A group of Brits are trying to build a replica of HMS “Beagle” and, on the Darwin Bicentennial in 2009, sail around the world following the exact path Charles Darwin made on his historic voyage. Have scientists, journalists and, yes, bloggers, on board who will do research, take pictures and videos, and write their ship-logs for everyone to read (if a ship-log is on a blog, is it called shlog?). Stop at every port and promote evolution!
Most definitely take your time to check out their website and blog to learn more about the project.
They’ll have wi-fi on the ship. They intend to have webcams on board as well. Oh, how I wish I could be on board! You can just imagine what kind of mad blogging I’d do! Any sponsors out there?
I wonder how long the trip would last? After all, the original Beagle took a lot of time mapping the coast of South America and exploring the inland areas in multi-day and sometimes multi-week parties. The new Beagle does not need to do that and can probably cut the total sailing time down to a year or even less.
But such a big project requires money! A lot of it – $6 million! And this is where you can help. Miss Prism, PZ Myers, Adam Turinas and others are coming up with creative ways to urge their blog-readers to donate to this worthy project. You should do the same on your blog!
Since, unlike MissPrism, I cannot knit, and I am not rich, how can I help? Perhaps I can urge you all to donate and, if you are interested, you can forward me the payment-confirmation e-mail (you don’t have to, of course). I will not reveal your name and link on my blog (unless you insist), but will post every day over the next ten days to reveal what the highest donation was to date. At the end of a ten-day period, I will contact the person who donated the most (to ask for permission to use the name and link and to give me the snail-mail address) and send that person a copy of The Open Laboratory. That’s probably the only thing of value I have and can give!
So, start donating now! And spread the word!

Are you a science blogger?

If so, you should read this, print it out and stick it on the side of your computer monitor. Then re-read it every time you sit down to write a post discussing actual scientific research.

Around The Science Blogs….

The ‘Basic Concepts in Science” list is getting longer and longer every couple of hours or so, it seems. Try to keep up with it. You may even want to Google-bomb (by linking using the same words as Wilkins does) some or all of the posts if you think they should come up on top in Google searches for these terms. Dan adds his own contribution on Cell Migration and Jennifer makes a wish-list for the Top Ten Physics Concepts that need to be included. To those, I’d add the series on statistics by ECHIDNE OF THE SNAKES: Part 1: Samples, Part 2: Probability, Part 3: Sample Statistics, Part 4: Sampling Distributions and Part 5: Constructing a Confidence Interval for the Sample Proportion.
If you know of an open-source, open-access journal that is not on this list, let Jackie know about it. Let’s fight the nasty anti-open-science PR!
Are you an Academic? And male? If so, you may be a ‘babe magnet’. Or not (Dr.Petra is an expert in administering cold showers).
Are you going to take the blog course on Joys of Science along with Zuska?
Magical Properties of Water (bought last week in my neighborhood): Part 1 and Part 2. Scooped Orac for the Friday Dose Of Woo series this week!
Vaughn of Mind Hacks is not surprised that ‘sleep’ is on the Wired Magazine’s list of 42 biggest unanswered questions in science. Though I’d say the magazine’s short blurb is at least mammalocentric if not entirely anthropocentric, as well as mildly adaptationist. After all, we have no idea why fruitflies sleep!
Alon Levy nicely rips into Steven Pinker, over on 3 Quarks Daily. Interestingly, he is stil linking back to his old flop-of-a-post on Lewontin that was debunked here.
There is a new group discussing Philosophy with emphasis on religion and Creationism. Catch up with them on their blog and forums.
John Hawks reviews a new paper on signalling in monkeys by Frans de Waal.
Everything you need to know about the Seismosaurus.
Pictures of some science bloggers at the conference last week. Can you recognize everyone? Perhaps this will help.

Gay Sheep in the New York Times

Speaking of the role of blogs in science communication, today’s NY TImes has an interesting article about the way a sloppily reported story about research on gay sheep got all out of proportion: Of Gay Sheep, Modern Science and the Perils of Bad Publicity (also mentioned by Dave this morning).
Apparently, the media reporting was heavily influenced by PETA, and much of the blogosphere fell for it, except for a couple of notable exceptions, including ’emptypockets’ who is a co-blogger on Next Hurrah and a Diarist on Daily Kos who focuses mainly on science topics.
His analysis of the way story spread through the blogosphere is very insightful and informative.
Here at scienceblogs.com, the story was picked up by Pharyngula and Gene Expression, from where it spread through the science blogosphere, but the PETA version spread more rapidly via LiveJournal and MySpace to the LGTB blogs which took it at face value.
What is the difference between the two opposite accounts? The use of a single word: “control”.

The release quoted Dr. Roselli as saying that the research “also has broader implications for understanding the development and control of sexual motivation and mate selection across mammalian species, including humans.”
Mr. Newman, who wrote the release, said the word “control” was used in the scientific sense of understanding the body’s internal controls, not in the sense of trying to control sexual orientation.
“It’s discouraging that PETA can pick one word, try to add weight to it or shift its meaning to suggest that you are doing something that you clearly are not,” he said.
Dr. Roselli said that merely mentioning possible human implications of basic research was wildly different from intending to carry the work over to humans.
Mentioning human implications, he said, is “in the nature of the way we write our grants” and talk to reporters. Scientists who do basic research find themselves in a bind, he said, adding, “We have been forced to draw connections in a way that we can justify our research.”

Yes, when information from the environment alters the pattern of activity of a portion of the nervous or endocrine systems which results in a change of activity of another organ, we say that the function of that organ is “controlled” by the brain or hormones. The brain and the hormones control many other aspects of physiology and behavior. This use of the word is not at all problematic.
Other biologists may use the term “control” in a bit more problematic way, when speaking about genes controlling physiology of behavior, but even this usage in no way implies that scientists, or business, or government are iching to control anything.
Ah, the power of language and its distortion (see my previous post below for another example)!

Natalie Angier on Time

Making Sense of Time, Earthbound and Otherwise

‘Flock of Dodos’ screenings in Raleigh

*N.C. Museum of Natural Sciences
/Downtown Raleigh/
**Thursday, January 18
“Flock of Dodos” screening with filmmaker, Randy Olson
7:00 p.m. Museum Auditorium
Free
*Filmmaker and Evolutionary Ecologist , Dr. Randy Olson, presents his
new film */Flock of Dodos/*: /*The Evolution / Intelligent Design Circus.*/
“Flock of Dodos” is the first feature-length documentary to present both
sides of the Intelligent Design / Evolution clash and tries to make
sense of the issue by visiting Olson’s home state of Kansas. The film
digs below the surface of the debate by examining the language being
used by both sides of this “circus” and the actual people presenting
each side. By doing so, Olson poses a serious question to the
scientific community as to who really is the “flock of dodos.”
After the screening, Dr. Olson will give a presentation followed by a
Question and Answer session.
The Museum will host additional free screenings of “Flock of Dodos” at
the following times:
Saturday, February 3, 3:00 p.m.
Saturday, February 10, 3:00 p.m.
Monday, February 12, Time is TBA — “Darwin Day”
We are hoping to have a panel of speakers in conjunction with the Darwin
Day screening. If you may be interested in participating on a panel to
further discuss this topic, please let us know.
The Museum is located at the corner of Jones and Salisbury Streets.
919.733.7450

Science Blogging Conference Update

NCSBClogo175.pngThe conference is only 19 [13] days from today! It’s getting really exciting!
The program is shaping really well:
On Thursday (January 18th) we will have a teach-in session. About 20 people have signed up so far (update: 30, thus the session is now full). We’ll use WordPress to help them start their own blogs, so I’ll have to make one of my own in advance and play around to figure out the platform before I teach others.
On Friday (January 19th), we’ll have dinner and all the bloggers present will read their posts. We have not decided on the place yet, but perhaps a site that has wifi, or a screen and a projector would be good as the posts can be seen as well as heard.
On Saturday (January 20th), we’ll have a busy program. We have two speakers: a scientist – Hunt Willard (director of the Duke Insitute for Genome Sciences & Policy) and a science blogger – Janet Stemwedel (Adventures in Ethics And Science).
Then, we’ll have four (or five) break-out sessions in an Unconference format – the participants take the lead and the leaders guide and moderate.
We decided not to have these sessions cover different areas of science, but different ways blogs, podcasts and other internet technologies can be used: a) research (e.g., using a blog as a public lab-notebook, online publishing), b) teaching (using the online technologies in the classroom), c) popularization of science (how to blog well, including the importance of visual props – illustration) and d) informing the public (e.g., public health, medicine, countering un-scientific forces in the society, etc. perhaps broken into wo sessions: one on science, one on medicine and public health). We have lined up four excellent people to moderate these sessions (not everything is on the wiki-page yet but will be soon).
Afterwards, we will go to dinner. If you have registered already, or plan to register soon, please do not forget to sign up for one of the dinners. Just edit the wiki and enter your name where you want.
At this moment we have 109 people registered (update: 127 and the limit is 150 so hurry up!) for the conference. Some locals will probably sign up at the last minute. Some of the people coming from very far away may still be waiting for good deals on plane tickets before they sign up. If you are considering this, it would be good if you could sign up as soon as possible so we have a good idea how many people to plan for in terms of space, food, swag, etc.
If you browse through the list of registrants, you will see what a great diversity of people there will be, a potential for cross-fertilization leading to high hybrid vigor! There are people from four continents coming to Chapel Hill in January to meet with us, as well as people from a number of States. There are science, medical and technology bloggers, web-designers, research scientists working in academia, government and industry, physicians, postdocs, graduate and undergraduate students, even high school students. There will be editors of science and medical journals and magazines, journalism professors and students, local journalists, and science writers. There will be science teachers at all levels – elementary, middle, high school and college. There will be local elected officials, and staff of state departments. And, I hope, you will be there as well!
We have attracted quite a lot of cool sponsors for the conference, so you can excpect some really good stuff in your swag bags! Still, both Anton and I are quite bad at begging for money. We do need a little bit more – can you or your organization be a sponsor, or donor, or host? If so, let Anton know as soon as possible.
And we may just be able to pull it off to have the The Science Blogging Anthology ready to be distributed at the conference.
Technorati Tag:

FemiBlogging of the Week, Month, Year and Forever

The 29th Carnival of Feminists is up on The imponderabilia of actual life containing posts by several of my favourite bloggers, including Zuska who has her own pick of favourites there.
Speaking of Zuska, she also has a cool article in the inaugural issue of the new science-culture Inkling Magazine, the brainchild of the magnificent blogging Trio Fantasticus of Inkycircus.
And while we are on the topic, Razib exhibits a complete lack of sense of irony, i.e., the inability to see sarcasm and seeing seriousness instead.

New Nature blogs

Nature is going crazy starting a bunch of new blogs:

* Methagora: The Nature Methods blog and comment forum.
* Nautilus: A blog for past, present and future authors.
* Peer-to-peer: A blog for peer-reviewers and about the peer-review process.
* Spoonful of Medicine: Musing on science, medicine and politics from the editors of Nature Medicine.

On the Orca that attacked its trainer

Dave explains the incident and gives some excellent background information way beyond what the media reported.

Video Science

You may remember when I mentioned the announcement of the new open-source online journal JoVE, a peer-reviewed journal of scientific methods in which submissions are provided in video form. Pimm, Eva, Jonah and Nick have also commented on it and Pimm prvides a look at the rate at which the news about the journal spread over the internet.
I have been thinking about this a little and I am wondering if we can predict what kinds of techniques are most likely to be found there – and what kinds will not.
I am assuming that showing how one uses a standard kit with no alterations of the protocol will not be included even if submitted. On the other hand, I know I’d be very nervous about showing videos of myself doing invasive surgeries on vertebrates – the kinds of techniques that are the most difficult to convey in words, but have a potential of triggering Alf/PeTa attacks on the site. Also, very complex, multi-step procedures, e.g., how to make a transgenic chicken, will probably have to wait a while before they show up on JoVE.
Simple behavioral tests, invertebrate surgery and staining techniques are, in my opinion, going to dominate the journal in the future. Ecological field techniques may show up as well.
What do you think?

Where do people find information about evolution?

I am sure glad that others have started parsing the numbers of the new report on ‘The Internet as a Resource for News and Information about Science’.
Duane Smith takes a close look at a couple of tables in the report and concludes that, while relatively few people say they get their information on evolution directly from the Bible and Church, many do so indirectly, by beeing steeped in their comunities’ beliefs transmitted by family, friends and neighbors (as well as local and church-run media). Interesting take (and I agree with him on this). What have you found so far?

Internet as a source of scientific information

Pew Internet and American Life Project just issued a new report: The Internet as a Resource for News and Information about Science (pdf). It states that:

Fully 87% of online users have at one time used the internet to carry out research on a scientific topic or concept and 40 million adults use the internet as their primary source of news and information about science.

The report is chockful of statistics of great importance to us science bloggers. For instance:

Each respondent to this survey received questions on one of three specific scientific topics: stem cell research, climate change, and origins of life on Earth. When asked what source they would use first if they needed to learn more about the topic, here is what they said:
67% of those receiving questions about stem cell research said they would turn to the internet first for information on this topic; 11% said the library.
59% of respondents receiving questions about climate change said they would turn to the internet first for information on this topic; 12% said the library.
42% of those answering questions about the origins of life on Earth said they would turn to the internet first for information on this topic; 19% said the library, and 11% said the Bible or church.

Our blogs are indexed with Google and other search engines and will show up on top of searches for scientific information, especially if it is related to recent science news, so these data are important to keep in mind:

87% of stem cell respondents who cited the internet as their first choice for finding out more about their topic said they would use a search engine.
93% of climate change respondents who cited the internet as their first choice for finding out more about their topic said they would use a search engine.
91% of origin of life respondents who cited the internet as their first choice for finding out more about their topic said they would use a search engine.

There is much, much more about the use of online resources, as well as attitudes of internet users toward science. David Warlick and his commenters also look at the data from an educational perspective.
I urge you to dig through the information and post your own thoughts on whatever set of numbers or conclusions you find curious or important.
Update: David Warlick has more.

SEED

Brummell continues to review the last issue of Seed Magazine. Part III is here and Part IV is here. You can read most of the articles online now – just go to the very bottom of my blog and click on the links on the bottom bar.

Exciting new online science journal

Have you ever read a paper in your field and wondered “how’d they done it?!” You read the “Materials and Methods” closely, again and again, and still have no idea how exactly was the procedure done. You want to replicate the experiment, or use the same technique for your own questions, but have no clue how to go about it.
As they say, a picture is worth a thousand words, and I guess that a video is worth a thousand pictures. So, learn the experimental techniques by watching videos of people actually doing them. You can do that on the brand new journal, just starting November 30th:
Journal of Visualized Experiments (JoVE), FREE journal publishing video-protocols:

JoVE is a newly founded online research journal that publishes video-articles on biological experiments (video-protocols). Video-articles include step-by-step instructions on experiments, and short discussions by experts describing possible technical problems and modifications.
JoVE invites article submissions in all areas of biology. Its editorial board includes a number of distinguished scientists, leading experts in their fields. JoVE employs the OPEN-SOURCE model: submission is free, and all video-articles published are freely available online.
A video-based approach is employed to allow for explicit demonstration on “how experiments are really done”, which remains unclear or misinterpreted from traditional publications in print. This is to increase reproducibility and decrease the traditionally high failure rate of biological studies. This approach can be especially important for scientific fields where experimental procedures are highly sensitive and difficult for standardization, e.g. neurobiology or stem cell biology. The JoVE’s approach is also expected to facilitate adoption of new technologies, e.g. genomics and proteomics, and thus lead to significant savings in time in resources in the academic and industrial research.

Update: Pimm has more details.

No, I am not asking for a raise here….

…but I have to note that The Brummell loves Seed Magazine and reviews the whole last issue, article by article.

The Mooney Experience

Just a quick note. I finally got to meet Chris Mooney, my fellow Seed Scienceblogger and the author of The Republican War on Science.
On Saturday, we met early enough to have coffee and a little chat before his book-reading and signing event at Quail Ridge Books in Raleigh. The long weekend in local schools (Friday off in Orange Co. and Monday off in Wake Co.) and a break in bad weather we had recently propably prompted a lot of locals to make that last trip out of town for the year this week, so the size of the crowd was not as impressive as it could have been, but those present were good and asked good questions afterwards.
I have to say that Chris has got his schtick down pat – the talk flows smoothly, is funny and to the point, and pre-empts all the usual protestations before they get to be voiced by anyone in the audience. If he comes to your neck of the woods, by all means go and see him.
His visit (which continues today at Regulator Bookshop in Durham and tomorrow at Duke University) was also an opportunity to just hang out (something I am out of practice with), chat and have a beer with friends who are also (science) bloggers, including Dave Munger,
Reed Cartwright and Tiffany, Abel PharmBoy, etbnc and Anton Zuiker.
Chris was not in a mood for a dinner at an elegant place, so instead we went to a cheep-beer/good-bar-food place, my old grad-school haunts where we stayed until midnight, chatting about science, politics, blogging, journalism, hurricanes (the topic of his next book) and many other things.
Even better, Chris gave us each a CD (“Luckless Pedestrian”) of his brother’s jazz band, the David Mooney Trio. I listened to it today and it’s great.

Politics and/of Science

The latest issue (Fall 2006) of the Social Research Journal has as its theme “Politics & Science: How their Interplay results in public policy”, based on a recent conference. The table of contents looks very promising. Unfortunately, none of the articles are online (yet?), so I cannot comment on any one of them. The upcoming Winter issue also looks promising – the topic is “Politics and Science: An Historical View”.
I hope all the articles come online soon (with permalinks so we can link to them) so we can all read them and dissect them on our blogs.

Morlocks and Eloi, oy vey!

Razib and commenters are commenting on this article which appears to be 19th century SF-fantasy repackaged as “serious science” about the future evolution of the human species. Actually, the article is so silly, Razib does not even want to waste time on it and points out only one of the obvious fallacies of the argument, the one about skin color. On the other hand, Lindsay does a thorough and delightful fisking that you may enjoy!
I don’t even know in which ‘channel’ to put this post. I guess it is “biology” but only nominally… as we do not have a “nonsense and having fun with it” channel here on scienceblogs.
Update: John Wilkins adds his 2 cents – and you should listen to him, speciation is his area of expertise.
Update 2: John Hawks and PZ Myers also chime in.
Update 3: Mouse Trap and Darren Naish have their own takes on the story.

Atlantis, lost and found, again

John bemoans the state of science journalism, with some added history of the Atlantis hypothesis.

Chris Mooney defends the Constitution

Chris Mooney, author of The Republican War on Science, will chat onliine on DefCon blog at 7pm EST tonight. You can post a question right now, if you register.

Flock of Dodos

Have you seen Flock of Dodos yet? Don’t you want to? Why not do something socially positive in the process – ask your local library to get a copy – it is only $345! Then ask them to host a public screening. Then get a bunch of friends and watch it. Get more information from Reed (especially for Triangle bloggers) and PZ Myers.

Science Blogging Conference update

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Just to make sure everyone knows where it is going to be, and while still early in the game, we decided to change the name of the conference into 2007 North Carolina Science Blogging Conference. So, go to the main page to download new logos and flyers. The t-shirt is also in the making…

2007 Triangle Blogging Conference – what you can do

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A science (and medicine) blogging conference, the first of its kind, is now officially announced for January 20th 2007. What can you do?
1. First, go to the conference wiki and look around to see what it is all about.
2. Help to spread the word by blogging about it. If you do, you can use these cool logos as well as this Technorati tag.
3. Download this flyer (pdf), print a couple of copies and post them outside your office/lab door or down the hall on a bulletin board, or wherever else you think it is appropriate.
4. Use the word of mouth or e-mail to tell your friends about it. Tell them the URL of the wiki: http://wiki.blogtogether.org/.
5. Check your calendar (and finances, I know, I know) and see if you can come to the conference yourself. If you can, register (as early as you can so we get a good idea about the number of people coming) using this easy registration form. See who else is already registered. So far, it is mostly bloggers – we are starting advertising around campuses, institutes etc. this week.
6. In a spirit of an Unconference, look at the conference Program and make it better by editing the wiki.
7. If you can, pitch in a small donation to help the conference run smoothly.
8. We have secured a couple of sponsors already and are in negotiations with several others. If you are connected to an organization that can, should and would like to be a sponsor, let me know. Cash, books, magazines, swag…we accept everything approporiate.
9. Sign up to volunteer. We’ll need locals to do a lot of driving between the airport, hotels, conference, post-conference dinner venues, etc. Out-of-town guests can also help on the day of the meeting by manning the registration desk, etc.
10. During the conference, consider liveblogging the meeting and posting pictures on Flickr using the tag. If you are a blogger and volunteer to do so, we can give you a name-tag of different shape/color which indicates that you are a science/medicine blogger and you are willing to answer questions by the non-blogging participants: scientists, physicians, students, science writers, journalists and librarians.
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Technorati Tag:

Local science radio and podcast

Radio In Vivo is close enough to me that I can listen to it at home (but not when I am driving places around town ro to Raleigh):

Radio In Vivo: Your Link to the Triangle Science Community is a one-hour interview/call-in program, focusing on one scientific topic per week. Typically, but not exclusively, scientific activities and personalities local to the Research Triangle area of North Carolina are featured.
Ernie Hood, a freelance science writer based in Hillsborough, North Carolina, produces and hosts Radio In Vivo. Please click the “About Ernie” link to your left to learn more about Ernie’s services and experience.
Radio In Vivo airs each Wednesday from 11 AM-12 noon Eastern time on WCOM-FM 103.5, Carrboro’s low-power community radio station. Although WCOM’s air signal is only available within Carrboro and parts of Chapel Hill, the station does stream on the Web, so anyone anywhere with high-speed Internet service can listen via computer.
You are welcome to call in and participate in the live discussion at any time. Dial 919-929-9601 – your call will be put directly on the air as soon as possible.

Scroll down for podcasts of previous shows.
Hat-tip: Brian Russell

BIG ANNOUNCEMENT: The 2007 Triangle Science Blogging Conference

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The 2007 Triangle Science Blogging Conference will be a day-long conference Saturday, January 20, 2007 from 8:30 a.m. to 5 p.m. This is a free, open and public event for bloggers, scientists, science educators and anyone interested in discussing science on the Internet.
The conference is organized by Anton Zuiker, Brian Russell, Paul Jones and myself (you may remember I have been pushing for something like this for a while now).
You can get all the information on the conference wiki, where you can also register for free.
For all the news and developments, check out the Blogtogether blog.
Update: While the main goal of this conference is to infect the local science community with the blogging virus, the meeting is most certainly not going to be of only local interest. We have already received inquires (and even registrations) from bloggers, scientists, educators, librarians, journalists and science writers from Cleveland, Madison, Toronto and elsewhere (including some of the Seed ScienceBloggers). If you can come, please do. More the merrier.
Technorati Tag:

How to become a science writer

Jennifer Ouliette offers sage advice.
You don’t need a science degree.
But nobody said you cannot have a PhD to do it.

March Of The Penguins, again

Hungry Hyena has an interesting critique of the movie.

Fossils are, by definition, dead

The phrase “Living Fossil” is second to only “Missing Link” on my list of irks-me-to-no-end abuses of English language. Darren Naish now explains exactly what is wrong with the term, using as the case study the recent rediscovery of the Sumatran rhino. This is your Most Obligatory reading of the day!

A new chart on the flow of scientific communication

This one was drawn by Arunn of Nonoscience and I like it very much!

Adolescent Sleep Schedule

This kind of ignorant bleating makes me froth at the mouth every time – I guess it is because this is my own blogging “turf”.
One of the recurring themes of my blog is the disdain I have for people who equate sleep with laziness out of their Puritan core of understanding of the world, their “work ethic” which is a smokescreen for power-play, their vicious disrespect for everyone who is not like them, and the nasty feeling of superiority they have towards the teenagers just because they are older, bigger, stronger and more powerful than the kids. Not to forget the idiotic notions that kids need to be “hardened”, or that, just because they managed to survive some hardships when they were teens, all the future generations have to be sentenced to the same types of hardships, just to make it even. This is bullying behavior, and disregarding and/or twisting science in the search for personal triumphalism irks me to no end.

I hated getting up early, too. I still hate it, and I’m so far beyond growth hormones that I don’t even remember how they felt. But I do remember that in middle and high school, I dragged myself out of the house at 5 a.m. every day of the week to deliver papers before I caught the 6:45 a.m. bus to school. I never fell asleep in class. Neither did anybody else. And something caused me to grow 6 inches and add 35 pounds between sophomore and junior year. At the end of that kind of day, complete with cross-country, basketball or track, I had no trouble falling asleep at 10 p.m.

He said that he grew up in height and weight when he was in high school. Who knows how much more he would have grown if he was not so sleep deprived (if his self-congatulatory stories are to be believed and he did not slack off every chance he had). Perhaps he would not grow up to be so grouchy and mean-spirited if he had a more normal adolescence.
I don’t know where he got the idea that growth hormone is a cause of the phase-delay of circadian rhythms in adolescence. It could be, but it is unlikely – we just don’t know yet. But, if a hormone is a cause, than it is much more likely to be sex steroids. Perhaps his sleep-deprived and testosterone-deprived youth turned him into a sissy with male anxiety he channels into lashing at those weaker than him?

In previous centuries, adolescents in an agrarian society got up at 4:30 or 5 a.m. with their parents to milk the cows or do any other of a long list of chores. Did growth hormones pass them by? Where were the “studies” that showed they really needed to go to bed after midnight and sleep until 10? And why weren’t their parents all being reported to the DSS? Oh, that’s right, there was no DSS. How did that generation survive?

He assumes that in times before electricity, teenagers used to wake up and fall asleep at the same time adults did. Well, they did not. Studies of sleep patterns in primitive tribes show that adolescents are the last ones to wake up (and nobody bashes them for it – it is the New Primitives with access to media that do that) and the last ones to fall asleep – they serve as first-shift sentries during the night watch.

Even in this, the 21st century, kids who enter the military at 17 find that they can fall asleep easily at 9:30 or 10, because they know they’re going to be getting up at 4:30 or 5. Apparently the Army hasn’t read the study on circadian rhythms.

Actually, the military being the most worried by this problem is funding a lot of research on circadian rhythms and sleep and has been for decades. Because they know, first hand, how big a problem it is and that yelling sargeants do not make alert soldiers.

Kids, if you need more sleep, my study shows there’s a simple way to get it. Turn off – I mean “power down” – the cell phone, the iPod and the computer sometime before 11 p.m. Turn off the TV. Turn off the light. Lie down in bed and close your eyes.

…and sit in the dark for the next four hours, heh?
This being the beginning of the school year, I can expect to see more of such nonsense printed in the MSM and on blogs soon, so I may repost (tomorrow) some of the stuff I have already written against the societal equation of sleep with laziness in general, as well as specifically concerning adolescents (see this, this, this, this and this, for instance).
What especially drives me crazy is that so many teachers, people who work with adolescents every day, succumb to this indulgence in personal power over the children. It is easier to get into a self-righteous ‘high’ than to study the science and do something about the problem. It is easier to blame the kids than to admit personal impotence and try to do something about it by studying the issue.
I am also currently reading a very good National Academies Press book on the topic of sleep in teenagers which I intend to review soon, as well as use as a source for future rants on the topic.
Addendum: Alon Levy extends this discussion to the general issue of ageism as a conservative way to supress change by supressing the habringers of change – the next generation. Excellent read.
I’d like to go in a slightly different direction – the issue of Moral Order (scroll down to the “Adults Over Children” subheading). Of course, adults have moral authority over children. But what it means, i.e., how is this phrase understood and put to practice, differs between authoritarian/conservative and authoritative/liberal worldviews.
A conservative thinks about his child: “I am good and you are bad. I will beat the sh**t out of you for every little transgression and I hope that will teach you well. Learn to love the rod, because the discipline I am giving out today will turn into your self-discipline later. Once you are 18, get the hell out of my house – by that time you should be as moral as I am now.”
That is the recipe for the development of the External Locus of Moral Authority.
A liberal thinks about his child: “I am older, thus more educated, experienced and mature than you are. You are a good child and have a potential to become a deeply moral person. I am here to help you and guide you in solving day-to-day moral dilemmas so, by the time you are an adult, you will naturally strive to do good and behave ethically.”
That is the recipe for the development of the Internal Locus of Moral Authority.

Update on Blogs and Scientific Communication

You may remember this chart from three days ago. Now, Rob Loftis updated his chart after the inputs of a number of bloggers and commenters over the past few days, and John Dupuis has his own chart he uses in teaching about the flow of scientific information.

Blogs and Science Communication

As a scientist and a blogger and someone very interested in science communication, I was quite delighted with Rob HelpyChalk’s series of three charts depicting traditional communication between scientists, traditional communication between scientists and general population, and the new two-way communication between scientists and general population (here is the third chart):
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Bill and PZ have some comments on the chart as well. Leave your comments on Rob’s blog.

Science Blogging – what it can be

Publishing hypotheses and data on a blogFrom quite early on in my blogging endeavor, I was interested in exploring science blogging, what it is, what it can do, and what it can become. So, check out some of my earliest thoughts on this here and here.
Then, over about a month (from April 17, 2006 to May 17, 2006) I wrote a gazillion posts on this topic, and many science bloggers chimed in in the comments or on their own blogs. The repost of all of them together is under the fold. Check the originals (and comments) here:
April 17, 2006: Publishing hypotheses and data on a blog – is it going to happen on science blogs?
April 20, 2006: Blogs as cited references in scientific papers
April 20, 2006: More on publishing data on blogs
April 23, 2006: Even more on science online publishing
April 25, 2006: And even more on science online publishing
April 30, 2006: Social networking for scientists
May 05, 2006: Science Blogging
May 11, 2006: Free online science publishing
May 17, 2006: Publish in Open Access Journals if you want to get cited!
And I have never fogotten it – check out this, this and this. So, let’s start this topic all over again!

Continue reading

Dolphins Are Intelligent!

Where does one start with debunking fallacies in this little article? Oy vey!

Dolphins and whales are dumber than goldfish and don’t have the know-how to match a rat, new research from South Africa shows. For years, humans have assumed the large brains of dolphins meant the mammals were highly intelligent.

No, we knew dolphins were smart millenia before we ever looked at their brains. The ancient Chinese knew it. Aristotle knew it. And the idea that brain size has anything to do with intelligence is, like, sooo 19th century.

Paul Manger from Johannesburg’s University of the Witwatersrand, however, says it is not intelligence that created the dolphin super-brain — it’s the cold. To survive underwater, these warm-blooded animals developed brains that have a lot of insulating material — called glia — but not too many neurons, the gray stuff that counts for reasoned thinking.

Wow! Since when are glia “insulating material”? A few years ago, for my Neuroscience class, I had to remember at least 10 functions of glia – not one of them having anything to do with insulation, or even structural support. It’s all about function – neurons and glia work together to process information. Anyway, I will blame this on the stupidity of the reporter as I doubt that anyone with such archaic ideas would ever be allowed to dissect a dolphin and publish a study in a decent journal.

Yet while dolphins aren’t as smart as people tend to think, they are as happy as they seem. Manger said dolphins have a ”huge amount” of serotonin in their brains, which is what he described as ”the happy drug.”

Sure, if you get your science from Cosmo and Glamour. Do I really have to start listing all the functions of serotonin now? Or try to define “happiness” in such simplistic terms that it can be explained with a single chemical?
It is not quite clear, but it appears that Alon Levy agrees with the study. But Lindsay is having none of it. She cites the self-recognition paper as well as some personal testimony of the researcher who did that study. When that paper came out I was teaching a “Readings in Behavioral Biology” graduate seminar and all the neuro faculty showed up for class and tried valiantly to destroy the paper – with no avail. It is good.
Dolphins are darn smart. They play (check this pdf). They have complex communication and complex social interactions.
So, how does this kind of argument ever show up? Because of anthropocentrism. Two types of anthropocentrism, to be precise.
First, the concept of “intelligence” is often defined in human-like terms. If an animal can do stuff we do, it is deeemed smart. If it can be easily trained like our immature offspring can, it is smart. If it can talk, it is smart. If it builds structures, it is smart. BS. Intelligence has to be defined from the vantage point of that species: what makes ecological and evolutionary sense for that species to be able to do. Bees are smarter than ants because they have a more sophisticated ability to orient in space and time, not because they speak English, French and Chinese.
Now, don’t get me wrong now. Since we are intelligent, looking for intelligence in other animals may benefit from comparison to humans. The trouble is, people go for specifics of human capabilities, instead of a general idea what intelligence is.
Writing “Hamlet” is an ecologically relevant ability for humans. It kept old Will fed and clothed for a few months, after which he wrote the next play. Why would an insect need to write theater plays? It is not ecologically relevant to it. It does not aid survival and/or reproduction.
Intelligence is the ability to learn fast and learn a lot of pieces of information relevant to one’s ecology. It is the ability to hold many of those pieces in one’s mind simultaneously, to juggle them and analyse them and notice patterns. It is the ability to play with that information, to get new ideas and test them, to note and remember the results of those tests. It is the ability to use this novel informaiton to invent novel behaviors – doing different stuff at different places at different times. In short, intelligence is the ability to do science! Behavioral flexibility is the hallmark of intelligence – not the specific types of behaviors.
The second anthoropomorphism considers the underlying anatomy. Why should unrelated species of high intelligence have brains similar to us? They evolved their high intelligence at different times, in a different lineage, with different raw materials to work with, and under different ecological pressures, for different purposes.
Many birds are very intelligent – but in their own way. Clarke’s Nutcrackers, African Grey Parrots, pigeons, and most corvids (ravens, crows, jays) are highly intelligent creatures with huge capabilities for episodic memory (remembering spatial and temporal aspects of personal experiences), play, problem-solving, spatial orientation and perhaps even insight (planning for the future). And their brains look nothing like ours.
Octopus is a very smart animal. Its brain looks nothing like ours.
Macs and PCs can do all the same stuff (roughly), but look nothing like each other under the hood. Many kinds of harware can run the same kinds of software and do same kinds of things, so why should brains have to be all built the same way in order to make an animal “intelligent”?
So, leave the dolphins alone, at least until the Startide Rising.
Addendum: I forgot to note that glia are not white matter. Axons are white matter while neuronal bodies are grey matter. Glia surround both. It is the color of Schwann cells (a type of glia) that makes axons look whitish.
Thus, more grey matter means more neurons. More white matters means more connections. What is more important: gazillions of scattered cells, or the complexity of their connections? I’d say connections.
Addendum II: Dave Munger wrote a valid criticism of what I wrote here (and somehow I missed his earlier post on this subject):

I agree that intelligence is tremendously difficult to define, but I’d suggest that the perspective of an individual species is a poor place to start. Based on that notion, every organism can be said to be intelligent, because every organism is highly adapted to its environment. When we say an animal is “intelligent,” we’re defining intelligence from our own perspective: the point is to identify animals that are similar to ourselves.

I’m not sure that the point is to identify animals that are similar to ourselves, but even if it is, similar in what way? The general mental capabilities (that we still need to define) or specific capabilities (which I argued here against)?
As for looking at each species individually, I agree that it is impossible to do it in isolation, but eahc species can be compared with other species in its own group, e.g., birds with birds, insects with insect, and then broader, all with all. If we define, provisionally, intelligence as fast learning, high processing power and flexibility of behavior, then we can compare species without looking at specific items that are learned, specific informaiton that is processed and specific behaviors that are flexible. For some species, being inflexible is a great adaptive trait – doing everything by the pre-programed schedule can work wonderfully for a long period of time. Other species evolve flexibility which allows them to spread on a broader spatial range and perhaps allow them to survive a longer geological time.