Yearly Archives: 2007

Bloggers for Peer-Reviewed Research Reporting

Dave announced that the contest for the icon for denoting posts covering peer-reviewed research is now open. Use your creative skills and/or spread the word.

Top Five Dead Scientists

James Randerson asks this question, but actually leaving only four slots open as “…If anyone plans not to include Darwin I’m going to have to ask them to step outside.” a sentiment with which Peter McGrath agrees. So – your Top 5?

ClockQuotes

The last time I saw him he was walking down Lover’s Lane holding his own hand.
– Fred Allen

My picks from ScienceDaily

Tracking Feline Memories On The Move:

When a cat steps over an obstacle with its front legs, how do its hind legs know what to do? A new study in Current Biology reveals that it is the foreleg stepping movement itself that leaves a lasting impression. By comparison, feline memories of having just seen an obstacle proved rather fleeting. Indeed, the researchers found that cats could remember having stepped over a hurdle for at least ten minutes. The findings suggest that cats’ working memories can extend much longer than earlier studies had shown, according to the researchers.

Elephantnose Fish ‘See’ With Their Chin:

Originating in Central Africa, Peters’ elephantnose fish (Gnathonemus petersii), finds its bearings by means of weak electrical fields. Scientists from the University of Bonn have now been able to show how well this works. In complete darkness the animals can even distinguish the material of objects at a distance or dead organisms from living ones. The results have now been published in the Journal of Experimental Biology.

More….
Claims Of Sex-related Differences In Genetic Association Studies Often Not Properly Validated:

A review of previous research suggests that prominent claims of sex differences of gene-disease associations are often insufficiently documented and validated, according to an article in the August 22/29 issue of JAMA.

SciVee has really made it.

Yup, a mention in The Inquirer! (see Wikipedia definition if unclear).

Today’s Carnivals

Change of Shift, Volume II, Number 5 is up on Nurse Ratched’s Place
Carnival of Space #17 is up on The Planetary Society Weblog

What is an “Author”?

There are some die-hards in the comment thread of this post on Evolgen who assert that the only thing that makes one an author of something is the act of writing, i.e., using writing materials to commit language to paper. Preferably English language… Thus, in their minds, there is something fishy about multi-author scientific papers, i.e., only the individual who crafted the sentences of the paper should be considered an author of that paper.
But…
Leonardo painted Mona Lisa. Leonardo is the “Author” of Mona Lisa. People who named it, framed it, marketed it, hung it up in The Louvre and described it in the Catalogue – all of them are equivalent to editors and publishers. They are not authors. Leonardo is. Although, note that he never commited language to paper. For all practical purposes he could have been illiterate, he would still be the Author.
Mozart composed The Little Night Music. Mozart is the “Author” of The Little Night Music. He wrote it down in musical notation, but for all practical purposes he could have just played it and had some court musician (Salieri?) jot down the notes on paper. In any case, Mozart is the Author. Although, note that he never committed language (German, English or any other) to paper. For all practical purposes he could have been illiterate, he would still be the Author.
Many modern music bands are composed of musically illiterate people. They get together and start playing their instruments. After a while and many fits and starts, they come up with something that actually sounds good. They then practice it and in the end they record it. The music is never written down, but it is distributed in the form of a digital file, perhaps as a CD. They are collectively Authors of the piece. Others – producers, recording engineers, marketers, etc. are not Authors. The band members are. No language was committed to paper in the entire process, not even musical notation. For all practical purposes they could all have been illiterate, they would still be the Authors.
When a bunch of scientists get together and talk, they may come up with an idea, which they then refine and develop. They contact other scientists who possess particular skills or expertise needed for the project. The work gets done, with each person doing his/her own part. They all participate in data production, data analysis and/or interpretation. Finally, almost as an afterthought, one unlucky member of the group is assigned the tedious job of writing the paper, i.e., the textual part of the paper. This one person commits language to paper, though the statistics and graphs are a much more important parts of the paper (and much more difficult to produce than text). All the people involved in the process are Authors of that piece of work. If the group hired someone else, e.g., a professional writer (and yes, some labs do that), to write the textual part of the paper, the ONLY person who is NOT an Author of that paper is the ONLY person who actually committed language to paper.
So, where does the confusion arise from? Authorship has NOTHING to do with language. It has everything to do with the creative process. People who produce something new, be it art, music, ideas (including stories) or knowledge are the authors of it. The writing is just one of the many possible ways that the authored thing is recorded for others to enjoy. A novelist is an author not because she typed, but because she creatively invented the story she subsequently typed.
Imagine if 20 or 50 years from now there is no scientific paper in the current form at all. All of science is reported in the video format on places like SciVee or JoVE. The authors of the work turn on the camera and talk about their initial idea and background, then show around the lab, demonstrate their techniques, put up a short clip of something relevant to the work (e.g., animal behavior), display the data and the analysis, then again turn to the camera and talk about their conclusions and the directions for the future research. The YouTube generation, now in their 50s and 60s and with long white beards, watches this and, if intrigued, clicks on another button that shows all the raw data sitting there ready to be mined. No writing is involved at all. No putting language on paper. Yet, all the people who participated in the creation of this piece of knowledge are Authors. For all practical purposes they could all be illiterate, they would still be the Authors.

Sarah is back from Chernobyl

So, this is a perfect time to take another look at her Notes From Ukraine and check out the last several posts from there. I hope the blog will continue as Notes From Durham including the coverage of her science at Duke and all the local blogger events…

Telecommuting – how it really looks like

Matt did it first! And then he told more of us. I like the one Laelaps did. But this is more truthfull:

Leave No Rock Unturned

On September 2nd this year go out somewhere: into your backyard, or the woods, or the bottom of the sea, and turn a rock or two or three. Take pictures of what you find underneath. Perhaps you’ll find earthworms, or pillbugs, or beetles. Or a starfish. Maybe even a snake. Perhaps even a snake guarding the entrance to Dick Cheney’s Undisclosed Location. If you turn a rock in Iraq and find WMDs please let us all know as that would be the biggest scoop in the history of the blogosphere (good luck with that one, though).
The idea was hatched by Dave Bonta, Fred Garber and Bev Wigney. Dave explains in detail.
Post your pictures on your blog and send Bev the URL, or post them on this Flickr tag, or send them to Bev at bev (at) magickcanoe (dot) com (with “Rock Flipping” in the subject line). Then sit back and watch the collection grow. See what others find under the rocks on that day. Post a link on your blog as well.

ClockQuotes

Everyone in daily life carries such a heavy, mixed burden on his own conscience that he is reluctant to penalize those who have been caught.
– Brooks Atkinson

Blogger Blowback

On Sunday, LATimes published a viciously uninformed piece about blogging by some Skube guy (who appears to be here in NC though I have never heard of him before). The blogosphere, as expected, responded with laughter and dismay.
Today, LATimes published a response by NYU J-school professor (who I have most definitely heard of, and even met in person once) Jay Rosen – The journalism that bloggers actually do:

Blowback! That’s what you’re in for when a great American newspaper runs a Sunday opinion piece as irretrievably lame as “Blogs: All the noise that fits” by Michael Skube…

The article lists a few examples (collected in the most blogospheric manner possible – in the comments thread on Jay Rosen’s blog, subsequently fact-checked and vetted before publication), including one distinctly science-related example – the George Deutch affair in which my Scibling Nick Anthis did some investigative reporting which resulted in a highly visible resignation of Deutch from NASA.

My picks from ScienceDaily

First Finding Of A Metabolite In One Sex Only:

Researchers at the University of Illinois at Chicago have discovered a chemical compound in male blue crabs that is not present in females — the first time in any species that an entire enzyme system has been found to be activated in only one sex.

How To Share A Bat:

New research shows how different species of plants evolve unique floral adaptations in order to transfer pollen on different regions of bats’ bodies, thus allowing multiple plant species to share bats as pollinators.

Global Warming Threatens Moose, Wolves:

Global warming is impacting more than the water levels in the Great Lakes. It could be the beginning of the end for the moose and wolves of Isle Royale. And if it is, a Michigan Technological University scientist places the blame squarely on the human race.

Female Hyenas Avoid Incest By Causing Male Relatives To Leave Home:

Researchers at the University of Sheffield in the UK and Leibniz Institute for Zoo and Wildlife Research (IZW) in Berlin, Germany, have found that female hyenas avoid inbreeding with their male relatives by giving them little choice but to leave their birth group.

Rare Condor Dies While Undergoing Lead Poisoning Treatment At The LA Zoo:

One of only 145 free-flying condors in the world unexpectedly died following treatment for dangerously high blood lead levels recently at the Los Angeles Zoo.

T. Rex Quicker Than Professional Athlete, Say Scientists:

T. rex may have struggled to chase down speeding vehicles as the movie Jurassic Park would have us believe but the world’s most fearsome carnivore was certainly no slouch, new research out suggests.

Feeling Hot, Hot, Hot: New Study Suggests Ways To Control Fever-induced Seizures:

When your body cranks up the heat, it’s a sign that something’s wrong–and a fever is designed to help fight off the infection. But turning up the temperature can have a down side: in about one in 25 infants or small children, high fever can trigger fever-induced (febrile) seizures. While the seizures themselves are generally harmless, a prolonged fever resulting from infection or heatstroke of over 108 °F (42 °C) can eventually lead to respiratory distress, cognitive dysfunction, brain damage or death.

Marburg Virus Found In African Fruit Bats:

A collaborative team of scientists reported findings today demonstrating the presence of Marburg virus RNA genome and antibodies in a common species of African fruit bat (Rousettus aegyptiacus).

Last Hope For Cambodia’s Parachuting Bird:

The Bengal florican – the rarest of the globe’s 27 bustards – is amongst 189 critically endangered birds being targeted by an initiative to find companies and individuals who will highlight each species’ plight and contribute funds towards helping them.

Frog Plus Frying Pan Equals Better Antibiotic:

What do you get when you cross a frog with a frying pan? Possibly a solution to the problem of drug-resistant bugs, research suggests.

Researchers Track Declining Timber Rattlesnakes:

Western Carolina University researchers are using geographic information systems technology and radio transmitters to track timber rattlesnakes this fall to determine whether new mountain subdivisions and road-building are pushing an animal listed as a “species of special concern” toward the endangered list.

Birds With Child-care Assistance Invest Less In Eggs:

An Australian bird has been found to produce smaller, less nourishing eggs when it breeds in the presence of other ‘helper’ birds that provide child-care assistance. This unique adaptation enables the birds to live longer and breed more often than females without helpers. The research, led by a University of Cambridge academic, was published in Science.

Uncertainties Of Savanna Habitat Drive Birds To Cooperative Breeding:

Delaying having kids to help raise the offspring of others seems like a bad choice if you want to reproduce, but many African starlings have adopted this strategy to deal with the unpredictable climate of their savanna habitats, according to a new study by University of California, Berkeley, and Cornell University biologists.

Today’s Carnivals

I And The Bird #56 is up on Big Spring Birds
Carnival of Education, #133 is up on The Red Pencil

New and Exciting in PLoS ONE

There are 30 new papers published in PLoS ONE this week. Here are a couple of my picks (under the fold). You know the drill, go read, rate, annotate and comment:

Continue reading

Commenting on PLoS ONE: Q&A

Intrigued, but unsure about the whole thing? Would like to add comments, but don’t really understand what is acceptable? Read this.

“Free Will” on display on SciVee

Do you remember all the buzz about the paper on the not random but not deterministic either behavior in fruitflies? By our blogfriend Bjoern Brembs?
Well, you can now watch the behavior of the insect in the movie associated with the paper. The video is up on SciVee of course – see it here.
And if there is a text box on top of it that bothers you, you can easily toggle it off – see the menu on the left, find Selection and click on the selection you are watching – textbox is gone. Click again, box is back. Also there on the left are Options, one of which includes “disable selection box”, so you should be OK.

Welcome the New Sciblings!

Everybody go say Hello to the Bleiman Brothers at the most recent addition to the Scienceblogs Empire – Zooillogix. Andrew Bleiman appears to be a Crustacean of some sort, while brother Benny has distinctly mammalian characteristics, but you have to be an expert (is Darren Naish in the house?) to figure out which Order to put him in….

ClockQuotes

A man can be a hero if he is a scientist, or a soldier, or a drug addict, or a disc jockey, or a crummy mediocre politician. A man can be a hero because he suffers and despairs; or because he thinks logically and analytically; or because he is “sensitive;” or because he is cruel. Wealth establishes a man as a hero, and so does poverty. Virtually any circumstance in a man’s life will make him a hero to some group of people and has a mythic rendering in the culture – in literature, art, theater, or the daily newspapers.
– Andrea Dworkin

Science Communication Consortium

Kate Seip of The Anterior Commissure and two of her colleagues have announced the formation of Science Communication Consortium:

There’s been a good deal of recent discussion, both face-to-face amongst colleagues and friends and within the blogosphere itself, on how scientists can effectively communicate their work to mass media and journalists, science writers and educators, and politicians and policymakers. To address these issues, we have partnered with New York Academy of Sciences to develop an inter-institutional Science Communication Consortium in the greater NYC region.
This newly-minted Consortium will consist of lecture series and discussion forums on the theory and application of effective science communication to a variety of audiences and across multiple purposes. With this series, we hope to provide scientists with tools and resources for effective communication with a variety of audiences, and to promote scientific literacy and the public understanding of science in the non-scientific public.

As they write on their new blog:

We three graduate students in the sciences have teamed up with the esteemed New York Academy of Sciences (NYAS) to form the first inter-institutional lecture series on science communication in the greater NYC area.
Now more than ever, scientists need to effectively communicate their work to mass media and journalists, science writers and educators, and politicians and policymakers. This lecture series is timely and extremely vital to promoting scientific literacy and the public understanding of science.
We intend to make this lecture series accessible to both scientists and non-scientists alike. Lectures will include how to effectively facilitate appropriate scientific dialogue with non-scientific audiences; exploring the roles of mass media, journalists, and science writers in science communication; and understanding how scientific communication can inform scientific policymaking and controversial decision-making processes.
Lectures will be held on a rotating basis at participating institutions, including Columbia University, Mt. Sinai School of Medicine, Weill Cornell Medical, The Rockefeller University, New York University, Rutgers/UMDNJ, and Stevens Institute of Technology.
We intend for this blog to act as a forum for stimulating discussion on topics related to science communication, a space to announce upcoming lectures, and a suggestion board to post issues that you’d like to see incorporated or addressed in the series itself.

So, if you are in the NYC area and can help in some way – blog about it, coax people to give lectures, help with hosting, etc. – contact Kate et al. and make it happen.

To read or not to read…

I have discovered that I sometimes suffer from paralysis by analysis on the blog. I write the best stuff when I concoct a post in my head during a dog walk and then immediately pour it into the computer while it is still hot. Whenever I set out to do some real lit research on the topic I realize that other, smarter people have already written all that, and did a better job than I could ever dream of doing, so I abandon the post.
So, I am getting really nervous now, as I am thinking of writing a post about the history of the scientific paper and how the Web and the Open Access will change it in the future. Then, I see that several smart people wrote about the topic already. To read them all or not? I am curious and I want to know, but I am afraid I’ll never write my post if I read these papers now. Advice?

Can a virus make you fat?

If you are a bird, yes. If you are a human, perhaps. Stay tuned.

Today’s Carnivals

The Boneyard #3 is up on Laelaps
The latest Grand Rounds are up on Med-Source
Carnival of the Green #91 is up on Green Options
Friday Ark #152 is up on Modulator
Carnival of Homeschooling #86 is up on Homeschoolbuzz

How to deal with HIV denialists online

My Scibling Tara Smith together with Steven Novella, published an article in PLoS Medicine last week that all frequent readers of science blogs will find interesting:
HIV Denial in the Internet Era:

Because these denialist assertions are made in books and on the Internet rather than in the scientific literature, many scientists are either unaware of the existence of organized denial groups, or believe they can safely ignore them as the discredited fringe. And indeed, most of the HIV deniers’ arguments were answered long ago by scientists. However, many members of the general public do not have the scientific background to critique the assertions put forth by these groups, and not only accept them but continue to propagate them. A recent editorial in Nature Medicine [32] stresses the need to counteract AIDS misinformation spread by the deniers.

A very, very good and important article! Especially if you are struggling with various kinds of denialists on blogs all the time.
And you can also see other cool papers published today in PLoS Medicine.

Nature mission (sic) statement

Maxine Clarke:

In printing the statement verbatim every week as we have done, making it clear when it originated, we have hitherto assumed that readers will excuse the wording in the interests of historical integrity. But feedback from readers of both sexes indicates that the phrase, even when cited as a product of its time, causes displeasure. Such signals have been occasional but persistent, and a response is required.

Suzanne Franks:

Who needs outright discrimination? It’s so much more pleasant and civilized to discriminate while pretending to be inclusive. It’s just one tiny step sideways, but in the right direction to deflect real and meaningful change. It’s just our small way of saying “patriarchy RULES!”

Chris Surridge:

I had always thought it was a disclaimer when quoting text letting me indicate that I know there is an error in the text but that I am quoting verbatim. Basically [sic] says “I didn’t make a mistake, the error is in the original”. Now it seems we can use it to indicate that we disagree with the original wording and are sure that the author would too if they were around to ask.

Bill Hooker:

So now at least I know what it is that I disagree with. I don’t think NPG should link to the 1869 statement, at least not without going through the modern version, as Nature (the journal site) does. I think the print journal should print the modern mission statement — with, if they want a nod to their impressive history, a comment to the effect that apart from updating sexist and exclusive language, not much has changed from the original (which is visible on our website, etc etc).

Suzanne Franks 2:

Well, I’m sorry, but much of my original critique remains unchanged. I don’t care if you have a nice new online mission statement. If you want to keep printing your old sexist one every week then contextualize it as a historical document and explain that it is sexist and outdated and was outdated at the time it was published and is included here only as another example of how women were explicitly excluded in the past. And contextualize it that way every time you print it, every week, not once in an editorial. That tiny little [sic] does not do the job. What it does is say “we know this is wrong but we don’t care, we are going to keep printing it anyway”. Continuing to print it uncontextualized each week says “we revere this bit of our history so much that we want you to read it every week. And we don’t really care all that much that it is sexist, ’cause we think it rocks so much!”
As I said in a comment, imagine the historical mission statement said “for scientific white men”. Would you still feel comfortable printing it every week? Would you feel that just inserting a little [sic] after it was a sufficient gesture to allow you to keep printing it unmodified? I’m guessing it’s less likely the answer would be yes.

Thoughts?

Michael Skube: just another guy with a blog and an Exhibit A for why bloggers are mad at Corporate Media

Here are a few pertinent quotes, but read the entire articles as well as long comment threads.
Ed Cone:

Skube published an opinion piece about blogs that, with the help of his editors at the LA Times, failed to uphold the journalistic standards he preaches.
It’s not the first time that Skube has opined out of ignorance on this subject. I called the Pulitzer winner’s previous column for the N&R a “virtually content-free rant, citing no blogs, showing no signs he did any research by reading blogs…crap.” Then I phoned Skube and found he had said little because he knew little and cared little about them. That doesn’t seem to have changed.

Jay Rosen:

Retire, man. I’m serious. You’re an embarrassment to my profession, to the university where you teach, and to the craft of reporting you claim to defend. It is time for you to quit, as you’ve clearly called it quits on learning– and reporting. Ring this guy up and ask him to go bass fishing or something. You’re not doing anyone any good– you’re just insulting your own bio. And when you’re done lecturing us on “the patient fact-finding of reporters,” tell the godforsaken LA Times they’re going to have to run a correction. The Post hasn’t won a Pulitzer for its reporting on Walter Reed Army Medical Center. Jeez.

Paul Jones:

In December 2005, Michael Skube wrote a poorly researched (or more properly not researched at all) oped about blogging for the News and Record (Greensboro, NC). [Oddly this article cannot be found in NewsBank or online]
Ed Cone was so shocked that he called Skube to ask him about his experiences reading blogs and found in a very interesting conversation that Skube admitted to having no experience reading blogs at all short of a couple of Andrew Sullivan pieces.
In the process, Ed mentioned Josh Marshall and Talking Points Memo. Skube owned up to knowing Marshall from print but had never heard of TPM.
Fast forward to yesterday and a new diatribe against blogs published in the LA Times. Here Skube reheats his arguments, but this time points to TPM as a place where facts aren’t checked. Only one problem, Skube still admits to not having read TPM — this time to Marshall himself.
Instead, Skube claims that his editors altered his article to insert TPM and others. Skube signed off on the article having yet to have done any of the research required to have written it.

Jill of Feministe (scroll down as Permalink is funky):

Dear Michael Skube,
Take a deep breath and repeat after me: Bloggers do not want your job.
You seem to be under the impression that bloggers want to do away with the journalistic establishment, and that we want to replace it with an internet free-for-all. That may be what the right-wing, Fox-worshipping dingbats over at Instapundit or TownHall are fighting for, but for the most part, progressive bloggers don’t want to see the end of CNN or the New York Times or Newsweek. We just want you to do your job. Bloggers are a lot of things, but for the most part, we aren’t reporters. We don’t have the resources that you have, or the institutional support. We’re critics, commentators, vultures who pick apart and criticize and sometimes build on the work that you do. We occasionally break stories, and sometimes we cover events, but many of us are decidedly partisan and don’t bother to feign neutrality. Some of us do report, and do try to adhere to traditional journalistic ethics. Most of us don’t. That’s ok. And, God help me for quoting Markos, but he’s right when he says that “We need to keep the media honest, but as an institution, it’s important that they exist and do their job well.”

Amanda Marcotte:

The idea that liberal bloggers are too blinded by partisanship to touch the robes of the unbiased press is un-fucking-believably insulting to me, on a personal level. While the mainstream media brainlessly played puppet for Republican smear-masters, pretending that “Catholic leaders” were attacking Melissa McEwan and myself, liberal bloggers kept the truth alive, writing and petitioning endlessly for the reality that we were the victims of baseless attacks from conservative organizations that exist pretty much only to undermine Democrats.
—————–snip—————
As Jill notes, it seems that Skube and others in the “MSM” seem to view comments from bloggers like this as a direct attack on their jobs, as if we are storming the gate and want to take over. To a degree, this is true–one of the issues that was kicked around during Yearly Kos, for instance, is how to percolate up some bloggers to the next level and get our voices into the mainstream media, which is no more seedy than the efforts undertaken by those already there to get their jobs. (The LA Times regularly runs pieces by Ezra Klein, so it’s only fair to point out that they’re often on the side of the angels on this.) But when it comes to journalism, Jill is 100% right–on the whole, liberal bloggers don’t want to oust the media. We just want it to work like it’s supposed to. If the media had worked like it was supposed to, the nation would have known from the get-go what was obvious to those of us with a healthy dose of skepticism, that there were no damn WMDs in Iraq and the Bush administration was orchestrating a misinformation campaign to trick the nation into going to war. The blood of thousands of American soldiers and hundreds of thousands of Iraqis is on the hands of every journalist who suspended good judgment and breathlessly passed on BushCo lies about the war.
That said, I do have a caveat to introduce that makes the whole thing distressing. Bloggers most definitely do not want your job. But I can see how it might seem, from the point of view of those who do have high perches in the “MSM”, that we’re trying to screw up their lives. It gets back to the whole acronym “MSM”–what Markos was probably getting at and Skube hysterically skipped over, was that the problem with the media is not that it’s mainstream so much as that it’s under the thrall of right wing elements, no doubt in part because it’s corporate-controlled.

Jay Rosen:

I know an editor at the LA Times who saw my post. He asked me if I wanted to write a Blowback piece (see this example) for the opinion section of the site.
A reply of sorts to Professor Skube.
I am not interested in investigating him, but I am interested in including in my reply 7-10 diverse and interesting examples of blog sites doing original reporting. The kind of thing he wouldn’t know about because he didn’t check it out before oh-pining.
That is, I am trying to be constructive and informative in my response, which will also be quite critical.
I have three to start off with that I think I will use, two well known, one less so.
1.) Talking Points Memo’s pursuit of the US attorney’s story this spring and over time.
2.) Firedoglake at the Libby trial March 2007.
3.) Daily Kos community and the Sinclair Broadcasting dossier in October 2004.
I know of others but I welcome your suggestions. The more different they are the better.

Anything from science blogosphere we can include?
Dan Gillmor:

Here’s the gist. Michael Skube, a former newspaper editor and Pulitzer Prize winner who’s now a journalism professor, wrote an opinion piece for the LA Times in which he flays bloggers for alleged violations of journalistic principles. In this case, Skube writes, bloggers show little willingness to do serious reporting: devoting “time, thorough fact-checking and verification and, most of all, perseverance” to the topic.
But the piece cites Marshall, whose work is among the best journalism — by any standard — that you can find on the Web in any form, in a passing reference, as if he’s one of the offenders.
Marshall takes this with careful calm, but then he reveals a stunning fact about Skube’s “reporting” style. An editor inserted the mention of Marshall, and Skube — who admitted to Marshall that he hasn’t “spent any time on your site” — let that run in the op-ed column. Marshall writes:

Josh Marshall:

Now, whether we do any quality reporting at TPM is a matter of opinion. And everyone is entitled to theirs. So against my better judgment, I sent Skube an email telling him that I found it hard to believe he was very familiar with TPM if he was including us as examples in a column about the dearth of original reporting in the blogosphere.
Now, I get criticized plenty. And that’s fair since I do plenty of criticizing. And I wouldn’t raise any of this here if it weren’t for what came up in Skube’s response.
Not long after I wrote I got a reply: “I didn’t put your name into the piece and haven’t spent any time on your site. So to that extent I’m happy to give you benefit of the doubt …”
This seemed more than a little odd since, as I said, he certainly does use me as an example — along with Sullivan, Matt Yglesias and Kos. So I followed up noting my surprise that he didn’t seem to remember what he’d written in his own opinion column on the very day it appeared and that in any case it cut against his credibility somewhat that he wrote about sites he admits he’d never read.
To which I got this response: “I said I did not refer to you in the original. Your name was inserted late by an editor who perhaps thought I needed to cite more examples … ”
And this is from someone who teaches journalism?

Mike the Mad Biologist:

Granted, sometimes I report on a science article that’s been released. But I hope no one thinks I’m doing straight reporting–at most, I engage that god-awful hybrid ‘news analysis.’ As I’ve written before, I’m just another guy with a blog offering opinions and something approaching analysis. Sometimes I even apply myself and reference stuff.
It’s too bad that Skube doesn’t realize that, at least based on his op-ed, that he too, is just another guy with a blog.

Lab Art

Do you have pictures from your lab (or office or Jeep you use to do your fieldwork), showing off some quirky aesthetic details? If so, send them to Cognitive Daily to include in the growing collection of the coolest lab decorations ever!

New and Exciting in PLoS Biology

The Scent of the Waggle Dance by Corinna Thom, David C. Gilley, Judith Hooper, and Harald E. Esch:

A honey bee colony consists of many thousands of individuals, all of which help to perform the work that allows their colony to thrive. To coordinate their efforts, honey bees have evolved a complex communication system, no part of which is more sophisticated than the waggle dance. The waggle dance is unique, because it exhibits several properties of true language, through which a forager communicates the location and profitability of a food source to other bees in the darkness of the hive. The information coded in the dance has been extensively researched, but we still do not understand how information is actually transferred from the dancing bee to the receivers of the message. Because information is often transferred by scent in honey bee colonies, we investigated whether waggle dancers produce a scent that distinguishes them from foragers that do not dance. We found that dancers produce four hydrocarbons that distinguish them from nondancing foragers, and that, when blown into the hive, increase foraging activity. These results show that waggle-dancing bees produce a unique scent that affects the behavior of their fellow foragers. We discuss likely meanings of this olfactory message and its potential role in waggle-dance communication.

Conserving Biodiversity Efficiently: What to Do, Where, and When by Kerrie A. Wilson, Emma C. Underwood, Scott A. Morrison, Kirk R. Klausmeyer, William W. Murdoch, Belinda Reyers, Grant Wardell-Johnson, Pablo A. Marquet, Phil W. Rundel, Marissa F. McBride, Robert L. Pressey, Michael Bode, Jon M. Hoekstra, Sandy Andelman, Michael Looker, Carlo Rondinini, Peter Kareiva, M. Rebecca Shaw, and Hugh P. Possingham:

Given limited funds for biodiversity conservation, we need to carefully prioritise where funds are spent. Various schemes have been developed to set priorities for conservation spending among different countries and regions. However, there is no framework for guiding the allocation of funds among alternative conservation actions that address specific threats. Here, we develop such a framework, and apply it to 17 of the world’s 39 Mediterranean-climate ecoregions. We discover that one could protect many more plant and vertebrate species by investing in a sequence of conservation actions targeted towards specific threats, such as invasive species control and fire management, rather than by relying solely on acquiring land for protected areas. Applying this new framework will ensure investment in actions that provide the most cost-effective outcomes for biodiversity conservation.

….and more, so check them out for yourself.

ClockQuotes

Sometimes it is said that man cannot be trusted with the government of himself. Can he, then, be trusted with the government of others?
– Thomas Jefferson

SciVee.com

Video is taking over science communication. And why not? Now that paper is outdated, the limitations of that ancient technology should not apply to scientific publishing any more. Just because paper cannot support movies does not mean that modern scientific papers should shy away from using them.
Last week saw the launch of SciVee, essentially an aggregator of science movies. Now, you may ask – why do we need yet another one of those sites? There are several out there already. Journal of Visualized Experiments is a real journal – the videos are submitted and reviewed first and, if accepted, the authors are supposed to pay a fee to have the video published. All the videos accepted are grouped into Issues, they get DOI numbers and there is a way to refer to them as citations in future papers (or videos!). Lab Action is similar in style, but more like YouTube, i.e., people freely upload the videos which are subsequently rated and commented on by users. SciTalks is also YouTube-ish, but instead of experiments, it has lectures by scientists and science writers/journalists. So does VideoLectures. On the other hand, ScienceHack is a serach engine for science-related videos. Nature Preceedings allows the upload of a few different types of files, and will likely include videos in the future, I guess.
So, how is SciVee.com different?
First, SciVee was built in partnership with The Public Library of Science (PLoS), The National Science Foundation (NSF) and The San Diego Supercomputer Center (SDSC), so it has broad institutional support right from the start.
Second, SciVee allows only the upload of movies associated with papers published in Open Access Journals. Richard Cave explains. The format of the video will vary. The first one up is essentially the author’s summary narrated into the camera. The others will demonstrate experimental technique, or display animal behavior relevant to the paper, etc. So, if you publish a paper in an Open Access journal, you can upload it to SciVee and the two spaces where the video appears will automatically link to each other. If you find a video by searching SciVee, you will be able to click on a link and read the paper. If you read the paper which contains a video, a single click will get you to SciVee where you can find related videos, videos by the same authors, etc. This cute flow-chart explains the potential of this system far better than I can put into words.
Deepak Singh, Kambiz Kamrani and Attila Csordasz have already posted their first impressions. You can also see the first reviews on Slashdot, If:Book, Mashable, InformationWeek, NewTeeVee, The Q Function and many other blogs. Check it out.

New York City Meetup – Saturday Night Fever

OK, this will be the last series of pictures of my Sciblings from the shindig of the past weekend. As you may have noticed, several others have posted their recollections and pictures on their blogs. You can also see some pictures on Flickr and Facebook and please add and tag more if you have them.
I have noticed it several times before, but this is something that really came out in full force at the Meetup as we really feel like an online family – meeting people online can produce real freindships. Then, when you meet offline for the first time after years of cyberchatter, there is nothing else to do but hug and continue the conversation over a beer as if you personally have known each other for year. There is no need to spend any time ‘getting to know’ each other.
In many ways, I know some of my blogfriends better than I know some of my real-life colleagues and acquaintances, as personality and some deeper secrets come out in people’s writings, even if they are really good at concealing those in person. The good thing is that I actually really like all of my Sciblings and meeting them all in person just reinforced this feeling – what a fantastic bunch of people!
And, in addition to them, we got to meet a couple of our readers/commenters on Saturday night which was just so great! Pictures under the fold.

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Frogs

Here (under the fold) are some pictures of the frogs from the American Museum of Natural History

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At the Museum

Thanks to Sheril who provided us with tickets, a bunch of us Sciblings went to the American Museum of Natural History on Saturday afternoon (pictures under the fold) and saw “Galactic Collision” – a planetarium-style presentation with awesome special effects (no cameras allowed, unfortunately), as well as an exhibit about frogs (difficult to get good pics, but I will choose a few semi-decent ones and post them later).

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A Bar Around The Clock

This is where we should have gone for beers last night….
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New York City Blogger Meetup – brunch pictures

OK, so a bunch of us sciencebloggers went to New York City this weekend. This is something that we were trying to do for almost a year now. Sure, many of us Sciblings have met one-on-one on occasion, but this was an opportunity to get many of us together all in the same place at the same time, to have fun together and see what happens.
So, on Friday, most of us managed to meet at Seed magazine’s (and scienceblogs.com) offices. That is where we started on our first beers….(see my pictures from the event posted on Saturday, as well as other people’s pictures)
Then we went to a Brewery on Union Square…and had some more beer…
Then we went to Adam Bly’s House (he is the Editor-in-Chief of Seed), where we had, you guessed it, some more beer (or wine, plus some great food). A number of Seed editors and staffers were there as well. A few more Sciblings managed to arrive by that time. I realize I have no pictures of Carl Zimmer, Dr.Signout and Orli van Mourik (perhaps some other people do, so look around).
Then, we went to a karaoke bar, where we had more beer…and yes, several of us sang….
On Saturday, we went together for breakfast in smaller groups (see my pictures I posted earlier today), followed by a brunch (pictures under the fold), where they filmed us (actually, about two thirds of us sitting at two tables, there was another non-camera table for the anonymous third, staffers and significant others). We talked about sciencey stuff and hopefully some clips of that will appear on the Seed site in the near future. That was also a good opportunity (while we were waiting for the cameras to get set up) for me to go around and promote PLoS and to promote the Science Blogging Conference.
That afternoon, a group of us went to the AMNH and saw two special exhibits – Galactic Collisions and Frogs (pictures still to come).
In the evening we went to BBar for dinner and beer for about 3.5 hours, followed by much more (and much cheaper) beer at a place called Colliseum. A few of our readers joined us for the occasion (pictures to follow, here, on Facebook and on Flickr).

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ClockQuotes

When we compare the present life of man with that time of which we have no knowledge, it seems to me like the flight of a lone sparrow through the banqueting-hall where you sit in the winter months. This sparrow flies swiftly in one door of the hall and out through another. Similarly, man appears on earth for a little while, but we know nothing of what went on before this life, and what follows.
– The Venerable Bede

New York City Blogger Meetup – breakfast pictures

Under the fold, Saturday morning pictures from New York City Sciblings meetup, at Union Square Inn and a pastry/coffee place where we had breakfast

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Around NY City

Just some pictures from the Friday morning stroll around town….

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ClockQuotes

We shall not cease from exploration
And the end of all our exploring
Will be to arrive where we started
And know the place for the first time.

– T. S. Eliot

NYC Meetup – pictures 1

A bunch of Sciblings meeting at the Seed offices in New York City on Friday Afternoon….updated with a couple of more pictures and links….(several more people came late, after my batteries died…)

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Happy Blogiversary

To me.
My very first post was on August 18, 2004 – seems like a century ago.
Anyway, the wifi at the hotel is very week so I will have to wait until Monday to post a couple of hundred pictures from the Seed scienceblogs meetup. In the meantime, I have placed a few of the pics on Facebook, and the Flickr tag is ‘sciblings07’.

Come and meet the Sciblings

Come and meet the Sciblings
About 30 or so of us Seed sciencebloggers are in New York City this weekend (many, many pictures to come), but if you want to see for yourself that we actually exist and our blogs are not written by robots, meet us at BBar and Grill at the corner of Bowery and 3rd starting around 7pm until they kick us out.
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ClockQuotes

I delight in men over seventy. They always offer one the devotion of a lifetime.
– Oscar Wilde

My picks from ScienceDaily

Male Elephants Get ‘Photo IDs’ From Scientists:

Asian elephants don’t carry photo identification, so scientists from the Wildlife Conservation Society and India’s Nature Conservation Foundation are providing the service free of charge by creating a photographic archive of individual elephants, which can help save them as well.

Cat Disease Linked To Flame Retardants In Furniture And To Pet Food:

A mysterious epidemic of thyroid disease among pet cats in the United States may be linked to exposure to dust shed from flame retardants in household carpeting, furniture, fabrics and pet food, scientists are reporting in a new study.

DNA Replication Behavior In Complex Organisms May Foreshadow Leaps In Genomic Discoveries:

For the first time, findings by scientists at the Genome Institute of Singapore (GIS) may be paving the way for more efficient analyses and tests related to the replication of cells, and ultimately, to the better understanding of human biology, such as in stem cell research.

Adaptation To Parasites Drive African Fishes Along Different Evolutionary Paths:

An international team of scientists from Canada (Université Laval), the U.K. (University of Hull, Cardiff University) and Spain (Doòana Biological Station), have discovered that a pair of closely related species of East African cichlid fishes — a group of fish whose diversity comprising hundreds of species has puzzled evolutionary biologists for decades — evolved divergent immune gene adaptations which might explain why they do not interbreed, despite living side by side.

ClockQuotes

Time takes it all, whether you want it to or not. Time takes it all, time bears it away, and in the end there is only darkness. Sometimes we find others in that darkness, and sometimes we lose them there again.
– Stephen King

Housekeeping Note

Little to no blogging for the weekend, unless I hit gold with some free wifi somewhere. Out of town. Will be back….

A laptop sticker I just bought

laptop%20sticker.jpgGet your own here.

PLoS Blog

As could have been expected, I am now officially the blogmeister of the PLoS blog. I have just posted my first introductory post there. It is a Drupal blog. The above and below the fold parts are separate (you see one or the other, not both at the same time) so this will take some getting used to. There will be, in the coming weeks and months, changes to the blog and I want your input. Post your suggestions in the comments over there. The comments are moderated for now due to excessive influx of spam, so be patient when you post comments there – I will approve them as fast as I can.

Blogrolling for Today

Sunday Night Dinner


The Yorkshire Ranter


Rota Fortuna


Globally Connected


Mindswap Weblog


The Blue Marble Blog


Science Commons blog


Philosophy of information


Broader Perspective


Pinhead’s Progress


Science Library Pad


Citizen Science Projects

Today’s Carnivals

Oekologie #8 is up on Direction not Destination
Four Stone Hearth: volume 21 is up on Archaeolog
The 13th installment of Philosophia Naturalis is up on Cocktail Party Physics.
Skeptics’ Circle #67: Giant Robot Edition is up on The Bronze Blog
Carnival of Space #16 is up on Advanced Nanotechnology