Yearly Archives: 2007

Liberal Blogging of the Week

Carnival of the Liberals #36 is up on Truth in Politics

In Memoriam: Knut Schmidt-Nielsen (September 24, 1915-January 25, 2007)

How did I miss this!?
Knut Schmidt-Nielsen, one of my personal scientific idols, died on January 25th, 2007at the age of 92.
KSN%201.jpgHe has re-invented, or perhaps better to say invented, the field of comparative physiology (now often refered to as ‘evolutionary physiology’). He wrote the standard textbook in the field – Animal Physiology: Adaptation and Environment, that he updated through several editions, from which generations of biologists (including myself) learned to think of physiological mechanisms as adaptations.
He wrote a definitive book on Scaling, as well as a wonderful autobiography – The Camel’s Nose: Memoirs Of A Curious Scientist.
KSN%202.jpgI had a good fortune to meet him a couple of times. He was a Guest Speaker at an NCSU Physiology Graduate Student Research Symposium several years ago where he gave an unusual but fascinating talk. I was his host for the day so I got to spend a lot of time with him one-on-one and try to osmotically draw in some of his genius.
A couple of years later, when his memoir came out, I persuaded Nansy Olson to have a public reading at Quail Ridge Books, which was well attanded and quite fascinating. The very last question from the audience was “Did any of your findings find a practical application?” to which he proudly responded “No!”. The old-style scientist. In it for the curiosity and nothing else.
While Schmidt-Nielsen did research on myriads of different animal species, he will forever be remembered as the Camel Guy. When he arrived at Duke University as a young new professor, he persuaded the Department to let him build an isolation chamber where he could measure the metabolic rate of a camel. They let him do it. He brought in the camel. Fascinating research resulted. He also built an identical, but much smaller, chamber into the wall right next to the camel chamber for the equivalent research in desert mice.
KSN%203.jpgWhen he retired, his position was filled by Steve Nowicki, a birdsong researcher. Duke offered to demolish the camel chamber and turn it into a lab. Steve declined in horror. Instead, he made sure that a plaque was installed at the door (“…this is the camel chamber in which…”) as well as on the little wall-chamber next to it. He turned the inside of the chamber into a grad student office (now, who can beat that – having the office in the ‘camel chamber’?!).
A few years later, Duke University built a monument to Knut Schmidt-Nielsen – a lifesize sculpture of the man and his camel – right outside the Biology building.
For many years after his retirement, Knut Schmidt-Nielsen kept a small office in the Department and came “to work” almost every day. He read the literature, including popular science magazines, and clipped the interesting papers/articles out of them to place in his colleagues’ mailboxes according to their interests. If there was Internet 50 years ago, Knut Schmidt-Nielsen would have been a science blogger for sure!
Always curious, always humble, always learning, always reading, always teaching, always popularizing science, every day of his long life. And that is on top of being truly one of the giants of science of all times.

Science Blogging of the Fortnight

Tangled Bank #77 is up on Aetiology

Blogrolling for today

Strange Maps

Dingo’s Kidneys

Jim Davies: the Blog

Stranger than you can imagine

Omniorthogonal

Metroblog

The Anterior Commissure

Everything and more

Rabett Run

Only In It For The Gold

EduBlogging of the Week

The Carnival Of Education: Week 114 is up on The Education Wonk.
Carnival of Homeschooling: Week 67 is up on Apollos Academy.

MedBlogging of the Week

Grand Rounds Vol 3, No.29 are up on Dr.Dork

AnthropoBlogging of the Week

Four Stone Hearth – Xlll is up on Remote central

My picks from ScienceDaily

Evolution Of Symbiosis:

The aphid Acyrthosiphon pisum depends on a bacterial symbiont, Buchnera aphidicola, for amino acids it can’t get from plants. The aphid, in turn, provides the bacterium with energy and carbon as well as shelter inside specialized cells. Such interdependent relationships are not unusual in the natural world. What is unusual, report Helen Dunbar, Nancy Moran, and colleagues in a new study published this week in the open access journal PLoS Biology, is that a single point mutation in Buchnera’s genome can have consequences for its aphid partner that are sometimes detrimental, and sometimes beneficial.

Continue reading

ClockQuotes

Time you enjoy wasting was not wasted.
– John Lennon

Today…..

….my father would have turned 86.
I’ll have a shot of slivovitz in his honor tonight.

Mind of a Raven

When my ‘Scientific American’ arrived the other day, I was excited to read the article about ravens by Bernd Heinrich, as I loved his book Mind of a Raven. I was also glad to see that new cool experiments have been done since the book came out. But I wondering how to blog about an article that is behind the subscription wall, so in the end, I abandoned the idea.
Now, Grrrlscientist comes to the rescues with an excellent summary of the article, that is well worth your time.

Framing ‘framing’

As you may have noticed, there is a vigorous debate going on in the blogosphere about framing science (all the links to all the relevant posts can be found if you click on that link).
For the uninitiated, this may look as a big dust-up and bar-brawl, but that is how blogosphere works, ya know, thesis + anthithesis and all. Dialectics, that’s the word I was looking for! Does not mean that Larry Moran and I will refuse to have a beer with each other when he comes to Chapel Hill next time!
The sheer quantity of responses, the passion, and the high quality of most posts, thoughtful and carefully written (even those I personally disagree with) demonstrates that this is a very important topic to scientists and people interested in science. I am really glad that the discussion has started.
The blog posts, as well as numerous comments, are, in themselves data. They show how people interested in science think about the concept of science communication. I am assuming that Matt and Chris will delve deep into them and use these data in further work.
The debate also shows that many people are unclear as to what exactly “framing” is. It also shows that the topic is broad and multi-faceted, as different commenters homed in on different aspects of the idea. This resulted in some misunderstandings, of course, but also brought to light the weaknesses of the ways framing is explained to people unfamiliar with the concept.
In my post (linked above), I tried to divide the concept into two broad categories: short-term and long-term.
The short-term framing operates at the time-scale of seconds. Its goal is to persuade. To make the listener believe that what you say is true.
The long-term framing operates at the time-scale of decades. Its goal is to make new generations much easier to persuade, and once they are persuaded, much easier to teach and inform about science.
A sub-set of responses also deals with the question – who should do it: all scientists, some scientists, or professional communicators (e.g., journalists, writers, pundits). I hope that my post also makes it clear that everyone is a part of the ecosystem, playing a role in the division of labor that most fits his/her temperament and inclination.
The debate also reveals something new to me: an automatic negative emotional reaction to the very word “frame”. This was something new to me and, as it baffled me, I tried to think about the reasons for this. I may be wrong, but I think I figured it out – I am not a native English speaker. Let me clarify….
I grew up speaking Serbo-Croatian. At about the age of 5 I started learning English, first at home, later in school, at a Language Institute and a few summer schools in the UK. For many, many years, the only meaning of “frame” for me was the thing you place a picture in. A picture frame can be a piece of art in itself. A well-chosen frame accentuates the art of the picture. The very act of framing a picture means that you have taken it out of a binder hidden in some dusty corner and are going to display it on a wall. All very positive meanings of the word “to frame”.
I saw “Who framed Roger Rabbit” in translation. I guess I knew the original title and had it stored somewhere in the back of my mind but never thought about what it means.
Then, I started reading Lakoff and other literature on framing. There, I understood the word to be a technical term, pretty neutral, or even a little on the positive side: about how to communicate well.
So, I was taken aback when I saw people responding – really, really fast – to the notion of framing by equating it to some very negative connotations: spin, lying, propaganda, selling-out, washing-down, branding, marketing, etc. Concepts that do not have much really to do with framing and some are actually opposite to it. Why does the word “frame” elicit negative frames?
Scientists are generally pretty intelligent and well educated people, people who could make a killing in a business world. Yet, we chose to forgo the money and fame and pursue the Truth instead. Instead of yachts, Irish Wolfhounds, racehorses, trophy-wives, champaigne baths, caviar dinners and personal jets, we’d rather spend our time in the lab, the field and in the classroom. We hate dealing with bureacracies of all kinds, be it the University administration or funding agencies.
Perhaps we are congenitally ‘allergic’ to the notion of selling. Selling is dirty. Marketing what you are selling is even dirtier. Something to be left to less-than-honest people in the world.
I do not know the backgrounds of all the bloggers who chimed in on this topic, even less the commenters, but I will speculate that people most resistant to the idea of framing are: a) scientists, b) native English speakers, c) quite Left on the political/ideological continuum and d) people who have not spent much time immersed in the cog-sci literature on framing (which may inncoulate one from feeling the negative emotions towards the word). All four. I am a) and c) and that is not enough for me to be hostile to the idea.
Is that true?
Tell me, if your reaction to the word “frame” is negative, why is that so? What, as a non-native English speaker, am I missing?
Related:
Framing Science – the Dialogue of the Deaf
Framing ‘framing’
Did I frame that wrong?
Framing and Truth
Just a quick update on ‘framing science’
Joshua Bell and Framing Science
Framers are NOT appeasers!
Framing Politics (based on science, of course)
Everybody Must Get Framed

How not to write a science book…

…or blog post, or any non-fiction for that matter. Dave Munger explains. As one of his commenters notes: ”

Actually, this fantastic post is like a DSM entry for diagnosing crappy science writing. “Must exhibit 7 of 9 symptoms for 200 pages.”

Print it out and put it next to your computer. Check it out next time you start writing something…

HIV-AIDS Blogging of the Month

Tenth Edition of International Carnival of Pozitivities is up on Transcending Gender

My picks from ScienceDaily

Some Bottlenose Dolphins Don’t Coerce Females To Mate:

Mating strategies are straightforward in bottlenose dolphins, or are they? Much of the work carried on male-female relationships in that species to date show that males tend to coerce females who are left with little choice about with whom to mate. This explains the complex relationships we observe in male bottlenose dolphins, which are only paralleled by human social strategies: the formation of alliances and alliances of alliances, also called coalitions. These alliances and coalitions are then used to out-compete other male bands to access females.

Continue reading

ClockQuotes

There is time for everything.
– Thomas Alva Edison

NeuroBlogging of the Fortnight

Encephalon #20 is up on Neurontic

Brain Essay Student Contest

Real Life (as well as the framing science debate) took too much of my time and energy and attention so I never got to posting this very inportant notice. I will just copy what Sharp Brains put up, but feel free to write your feedback both to me and to Alvaro:

What is the Brain Essay Student Contest?
A real-life experiment to connect high-school students and teachers of biology and psychology with science and psychology bloggers.
What will happen?
1) Essay submissions by May 10th, 2007: students (or teachers, with students’ consent) can use the form below to submit 400-800 word essays on the topic “Based on brain research, what is Learning and how do we Learn?”.
2) Evaluation and Publication by May 20th: from all submissions, the Jury -composed of the 5 bloggers below- will select the Best 10 Essays based on the usefulness of the content and quality of writing. Each blogger will publish 2 winning essays on their blog on May 20th.
The Jury is composed of leading blogs in their respective fields:
A Blog Around The Clock
Neurophilosophy
Positive Psychology Daily
SharpBrains
The Quick and the Ed
Is there a Prize?
Each winner will receive:
I. Recognition in the blogosphere. The essay will not only be published in a top blog, but submitted to a number of science, psychology and education blog carnivals.
II. A free annual subscription to TuitionCoach, a personalized, internet-based program that de-mystifies the college financial aid process for students and their families and helps families find the best options to finance college choices.
Why is this happening?
One of the final recommendations of a recent science conference co-organized by Bora was to increase the flow of communication between bloggers and high-school students and teachers. Separately, Jeff, a high-school psychology teacher, sent us some essays by his students, we were amazed at their level, and in fact published one: “Tis better to give than receive”: oxytocin and dopamine.
Now we want to see if 1 + 1 can equal 10!
This is cool. How can I help?
If you are a student, please submit an essay that makes you proud!
If you are a teacher, please encourage your students to submit a good essay!
Everyone else: please help us spread the word by linking to this page! we will publish links to all collaborating blogs below the form.

Lablit Survey – why leave science?

Do the survey for this week and let me and John know how you answered and why:

Most likely reason a scientist will leave research?
Can’t find a permanent position
Desires to earn a higher salary
Sees no correlation between hard work and eventual success
Wants to make a greater impact on society
Feels love of science could be better expressed in another career

Do you intend to open your own science?

If so, go tell Bill:

There must be more. Who else is doing, or planning to do, open science? And further, how can we help each other?
My working hypothesis is that open, collaborative models should out-produce the current standard model of research, which involves a great deal of inefficiency in the form of secrecy and mistrust. Open science barely exists at the moment — infancy would be an overly optimistic term for its developmental state. Right now, one of the most important things open science advocates can do is find and support each other (and remember, openness is inclusive of a range of practices — there’s no purity test; we share a hypothesis not an ideology).
So talk to me, putative ally and colleague! Who are you, where are you, how can I help you? I sure would like to hear from you.

Feldman Skewered

It appears that scientists are not the only ones who do not grok framing. Jeffrey Feldman’s book got blasted by some ninkompoop in NY Times yesterday. Jeff responds:

Indeed, when I read that passage I wondered if the reviewer had given up on reading my book just after glancing through the table of contents. It seems that, instead of writing about my book, Fairbanks popped in a DVD of “The Matrix,” or maybe “A Clockwork Orange,” and then churned out a piece of creative non-fiction reacting to those other works of sci-fi.

Update: More about the “fairbanksing” of Feldman here, here and here.

Welcome the newest SciBlings!

Go say Hello to Jennifer Jacquet and Randy Olson (aka ‘Dodo’) at Shifting Baselines

ClockQuotes

Time ripens all things. No man is born wise.
– Miguel de Cervantes

Actography

Good. Everyone expected it, but it is nice to have it tested and confirmed. Makes life easier and research cheaper.
Measuring Movement To Assess And Manage Sleep Disorders:

Actigraphy, the use of a portable device that records movement over extended periods of time, and has been used extensively in the study of sleep and circadian rhythms, provides an acceptably accurate estimate of sleep patterns in normal, healthy adult populations and in-patients suspected of certain sleep disorders, according to practice parameters published in the April 1st issue of the journal SLEEP.

This means that patients can go about their normal lives instead of checking into a sleep lab. They just need to wear the “watch” at all times and bring/send in the data on a regular basis.

Pediatric Blogging of the Fortnight

Pediatric Grand Rounds 1:26 are up on Flea’s blog. It is a carnival every entomologist will like….

Framing Science Update

I have updated my uber-long post about framing science. I added a lot more links to the blogospheric responses, as well as my own response to critics at the very bottom of the post. I have also re-posted it as a Diary on DailyKos which I hope you will visit to see the comments and to recommend (if you are a Kossian).

MoveOn.org Meet the Candidates virtual TownHall in Pittsboro

I am thinking about going – this is only about 2 miles from me:

Tuesday, April 10th is our first ever MoveOn Virtual Town Hall meeting with the ’08 presidential candidates. (The full list of candidates invited to attend is below.) The topic is Iraq, and we want you to have a front row seat.
You can join other members of your community and tune in via the Internet to hear the top candidates answer questions chosen by MoveOn members. Afterward, you’ll have a chance to discuss what you heard, and then vote by email on who will do the best job of bringing our troops home.
Can you attend a town hall meeting in Pittsboro on Tuesday, April 10th?

—————————-

The Town Hall will be fun–it’ll be totally new, and you’ll meet interesting folks from your neighborhood. And hearing the candidates answer questions straight from MoveOn members’ mouths will be fascinating. Usually at this stage of the game, pundits and big donors are deciding the race. But this event puts MoveOn members right in the driver’s seat.
MoveOn’s Virtual Town Hall allows us to hear directly from candidates. But more important, it lets them know what’s important to us, and this means progressive perspectives get injected into the debate early. If we want to help shape what issues count in ’08, we have to let them know where we stand now.
And the Iraq Town Hall is just the beginning. We’ll hold meetings over the next few months on other priority issues: global warming and health care. These are the issues that you all decided are important through our “positive agenda” process, and we want to make certain they are central to the debate over the next two years.
But with the situation in Iraq changing daily and the campaigns gearing up full force, we need to be pressing the candidates about where they stand on Iraq. Can you attend a MoveOn Town Hall meeting next Tuesday in Pittsboro?
MoveOn members voted last week to invite the following candidates to participate in the Iraq Virtual Town Hall Meetings. We’ll keep you posted on who accepts our invitation:
* Sen. Joe Biden
* Sen. Hillary Clinton
* Sen. Chris Dodd
* Sen. John Edwards
* Mayor Rudy Giuliani
* Gov. Mike Huckabee
* Rep. Dennis Kucinich
* Sen. John McCain
* Sen. Barack Obama
* Gov. Bill Richardson
* Gov. Mitt Romney
* Gov. Tommy Thompson

Amateur Scientists Can Get Published in ‘Science’

Talking about the hermetic cabal of scientists who never let any outsiders in….
Climate change fruitful for fungi:

A remarkable father-and-son research project has revealed how rising temperatures are affecting fungi in southern England.
Fungus enthusiast Edward Gange amassed 52,000 sightings of mushroom and toadstools during walks around Salisbury over a 50-year period.
Analysis by his son Alan, published in the journal Science, shows some fungi have started to fruit twice a year.
It is among the first studies to show a biological impact of warming in autumn.
“My father was a stonemason, and his hobby was mycology,” recounted Alan Gange, an ecology professor at Royal Holloway, University of London.

Hat-tip: Lindsay.

GenBlogging of the week

Gene Genie #4 is up on Sandwalk

For my Orthodox Readers

Easter.JPG
Yes, the Orthodox and Catholic Easter fall on the same day this year.

Blogrolling

Transcription Factor

Entertaining Research

Café Philos: an internet café

The skeptical alchemist

VirusHead

Happy Jihad’s House of Pancakes

El PaleoFreak

Shakesville (formerly Shakespeare’s Sister)

Amardeep Singh

The Radula

My picks from ScienceDaily

Flies Don’t Buzz About Aimlessly:

Have you ever stopped to wonder how a fruit fly is able to locate and blissfully drown in your wine glass on a warm summer evening, especially since its flight path seems to be so erratic? Mark Frye at the University of California and Andy Reynolds at Rothamsted Research in the United Kingdom have been pondering this very question. Fruit flies explore their environment using a series of straight flight paths punctuated by rapid 90° body-saccades. Some of these manoeuvres avoid obstacles in their path. But many others seem to appear spontaneously. Are the spontaneous flight paths really random, do they serve any real purpose?

Continue reading

ClockQuotes

The best way to fill time is to waste it.
– Marguerite Duras (b. 1914)

How many things are wrong with this study?

Here, have a go at it. Even better, if you can get the actual paper and dissect it on your blog, let me know so I can link to that. Have fun!
Good Behavior, Religiousness May Be Genetic:

A new study in Journal of Personality shows that selfless and social behavior is not purely a product of environment, specifically religious environment. After studying the behavior of adult twins, researchers found that, while altruistic behavior and religiousness tended to appear together, the correlation was due to both environmental and genetic factors.
According to study author Laura Koenig, the popular idea that religious individuals are more social and giving because of the behavioral mandates set for them is incorrect. “This study shows that religiousness occurs with these behaviors also because there are genes that predispose them to it.”
“There is, of course, no specific gene for religiousness, but individuals do have biological predispositions to behave in certain ways,” says Koenig. “The use of twins in the current study allowed for an investigation of the genetic and environmental influences on this type of behavior.”
This research is another example of the way that genes have an impact on behavior. “Society as a whole assumes that home environments have large impacts on behavior, but studies in behavior genetics are repeatedly showing that our behavior is also influenced by our genes,” says Koenig.

Bodies

The Bodies Exhibition is coming to The Streets at Southpoint in Durham.
My wife saw it last year in NYC. My daughter will probably be too squeamish for it, but I’ll try to get my son to come with me.
Once I go….well, it is certainly a bloggable event.

Wine

Earlier this afternoon, my wife and I went to the Weaver Street Market in Southern Village (which also has a blog) for some wine tasting. You can see the wine list here (pdf).
As the first rule of blogging is never to blog drunk, I had a to wait a couple of hours afterwards before I started to write this post. I wasn’t really drunk, but I was happy enough to seriously consider singing on our walk home. I guess I am quite a lightweight…
Our strategy was for Mrs.Coturnix to taste the whites (and occasional red I recommend) and for me to taste the reds (and occasional white she recommends). She is a connoiseur of whites, while I grew up in a household that only had red and rose. Thus, my taste for whites is very naive – I like them as sweet and fruity as can be, and I was very happy with the Hyatt Riesling which is best described as sweet fruit-juice with alcohol. But I like that!
The quality of red wines was mixed. And anyway, after tasting 20 or so of them in rapid succession, they all tend to blend and it is difficult to tell them apart any more. I am a big fan of Malbec and there were two there (Alcion and Cava Negra), both dirt cheap and quite decent. As the summer is coming and the grilling with it, I think I’ll get a few bottles – they go great with a blackened slab of cow or lamb. Shirazes were underwhelming. The Garnacha tasted just like a Malbec! Warre’s Port, Leverano Rosso and Ten Mile Red were fine. The rest I don’t remember.
So here are my Top Three of the day, in this order:
1. FontanaVecchia Aglianico Riserva ’00
The kind of rich, deep, full-bodied red that I grew up with, something my father would have liked.
2. Vale do Bomfim Douri Reserva ’04
Almost as good.
3. Hogue Cabernet Sauvignon “Genesis” ’03
This was recommended to me before, and it is excellent.

Framing Science – the Dialogue of the Deaf

Blog%20Against%20Theocracy.jpgMy SciBlings Chris Mooney and Matt Nisbet just published an article in ‘Science’ (which, considering its topic is, ironically, behind the subscription wall, but you can check the short press release) about “Framing Science”
Carl Zimmer, PZ Myers, Mike Dunford (also check the comments here), John Fleck, Larry Moran, Dietram Scheufele, Kristina Chew, Randy Olson, James Hrynyshyn, Paul Sunstone and Alan Boyle have, so far, responded and their responses (and the comment threads) are worth your time to read. Chris and Matt respond to some of them. Matt has more in-depth explanations here, here and here (pdf) that are worth reading before firing off a response to the whole debate.
This is not a simple topic, but I will try to organize my thoughts in some way….

Continue reading

My picks from ScienceDaily

Behavioral Ecology: Late Breeding Female Birds Surprisingly Had More Offspring:

Starting to breed late in life is a bad idea if you want to maximise the number of offspring that you produce – or so the theory goes. But doubt has now been cast on this hypothesis – one of the biggest assumptions in behavioural ecology – by researchers from the universities of Bristol and Cape Town and published today in Current Biology.

Continue reading

ClockQuotes

Time is at once the most valuable and the most perishable of all our possessions.
– John Randolph

The Power of Emoti(c)ons

Energy Use Study Demonstrates Remarkable Power Of Social Norms:

Most people want to be normal. So, when we are given information that underscores our deviancy, the natural impulse is to get ourselves as quickly as we can back toward the center. Marketers know about this impulse, and a lot of marketing makes use of social norms. This is especially true of campaigns targeting some kind of public good: reducing smoking or binge drinking, for example, or encouraging recycling.

This tendency may not always be used for good. This is, after all, the idea behind the Overton Window, which the Right wing has abused for about three decades now – moving the ‘window’ of what is socially and politically acceptable further and further to the Right, to the extent that extreme Right-wing rhetoric and ideas, bordering on fascist, are acceptable, while anything left of center is deemed unpalatable (“socialist”, as if that was a bad word or something).
I have noted before that neither Clinton nor Obama understand the concept and thus play straight into the conservatives’ hands, allowing or even helping them to keep moving the “center” further to the right (while only Edwards understands this and wants to move it back to the Center where it belongs). This also explains why people with a Compulsive Centrist Disorder, including the pundits, keep moving to the Right and keep calling it the Center.
But, perhaps the study linked above can give us some ideas:

Continue reading

‘Ask the ScienceBlogger’ returns

Remember “Ask the ScienceBlogger” series? Well, it’s back. And it is somewhat different now. Instead of putting the question out for everyone to respond to (or not) at their own leisure, this time one particular SB blog will be charged with answering the question, and others are free to chime in if they wish so afterwards.
The first question is out of the box now:

What’s the difference between psychology and neuroscience? Is psychology still relevant as we learn more about the brain and how it works?

And Dave and Greta Munger of Cognitive Daily were charged with answering it. They did the job magnificiently!
Subsequently, Jonah Lehrer posted his commentary as well.
If you have a question, send it in to the Seed Overlords and it – and the answer to it from one of us – may show up one day down the line.
If you have a question that you want me to answer – on biological rhythms, comparative animal physiology, or animal behavior – let them know you want me to be the blogger in charge of answering the question. If you have trouble e-mailing them, send the question to me and I will forward it to the appropriate Seed staffer.

E.O. Wilson wins 2007 TED Prize – watch his acceptance speech

2007 TED Prize winner E.O. Wilson on TED (Technology, Entertainment, Design) Talks:

As E.O. Wilson accepts his 2007 TED Prize, he makes a plea on behalf of his constituents, the insects and small creatures, to learn more about our biosphere. We know so little about nature, he says, that we’re still discovering tiny organisms indispensable to life; and yet we’re steadily, methodically, vigorously destroying nature. Wilson identifies five grave threats to biodiversity (a term he coined), and makes his TED wish: that we will work together on the Encyclopedia of Life, a web-based compendium of data from scientists and amateurs on every aspect of the biosphere.

Blogrolling

Patterns That Connect

Shape Of A Drum

Living in Japan

When Pigs Fly Returns

PLACEBO JOURNAL Blog

Reconciliation Ecology

My Best Life

Bourgeois Blues

Science Avenger

Wrong Side of Thirty

Scrutiny Hooligans (new URL since they moved)

How to read a scientific paper

I was waiting until the last installment was up to post about this. Revere on Effect Measure took a recent paper about a mathematical model of the spread of anti-viral resistance and wrote a 16-part series leading the readers through the entire paper, from the title to the List of References and everything in between. While the posts are unlikely to garner many comments, this series will remain online as a valuable resource, something one can use to learn – or teach others – how a scientific paper is to be analyzed.
As you can see, it takes a lot of time to read a paper thoroughly. It also requires some background on the topic of the paper. A journalist on deadline is unlikely to have either the time or the necessary background to be able to read a paper in this manner before writing an article. And that is just one paper per week.
Scientists themselves rarely read all the papers as thoroughly as this. If you, like I do, go through dozens of papers per week, you find your own method of cutting down the necessary time. You skim through the abstract, figures and figure legends, perhaps some of the Discussion and – this is it. You make a mental note what the paper is about and move on. But that is reading for one’s own information only. It is not the way to read a paper one is to comment on – or write an article about. For that, one has to do it throughly, like Revere did.
If a paper is in my narrow field, or a field I am very familiar with, the first place I look is the list of references. This tells me from what tradition the paper comes from, what group of people, what mindset, what research goals and questions. That is, actually, already a LOT of information about the paper. Then I read the abstract, look at the figures and figure legends and, if necessary, scan the text of the Results section to find relevant passages connected to the figure I am interested in. Then I dig deep through the Materials and Methods because that is where flaws, if any, will be discovered. Introduction can usually be skipped – that is mainly for the readers outside of the narrow field. Then I read the Discussion carefully in the very end, by which time I already have a very good idea what the data really say so I can spot if the authors overreach in their conclusions.
As a science blogger, I would not want to write a post about a paper I have not read as throughly as that. I may post a link to it and let you evaluate it for yourself, or point out if some other blogger wrote a good review, but I would not go into a critique of my own if my familiarity with the paper was only superficial, or if it is in a field I do not have a good background in – thus, no reviews of physics papers here!
As this process takes a lot of time and effort, it is not surprising that science bloggers do not post such in-depth reviews very often. I may do one a week if Real Life allows. It is easier, quicker and gets more comments and traffic to write posts that do not require as much expertise and as much time and effort.
But doing it once in a while is still worth the effort. See this latest post on Pharyngula. It is stunning, beautiful, exciting! Yet, this was probably the post that took PZ most time and work to write of all of his many posts this week. And it is likely to get less comments, links and traffic than any of the other posts. But, unlike the commentary about current issues or the daily anti-religion screed (which are all eloquent and lovely and useful and have to be done), this post will not dissappear into the depths of his archives forever. It will remain online (and likely high on Google searches) as a resource that will be linked again and again, for years to come, by other bloggers as well as people who want to use it when teaching biology in the real-world classrooms. The same goes for Revere’s series, or for that matter every serious science post that goes into detail of an area or a single paper and explains it (and perhaps criticizes it) in plain language. There has to be room for all kinds of science blog-posts, each serving a different purpose.
So, bookmark Revere’s series, read it, and save it somewhere handy for future reference.

Evolution Visualized and Explained


I think I will show this in class in May when I teach the evolution lecture again.
Reed adds some caveats I am sure to point out in the classroom.
Update: Watched it again. I think I’ll stop the movie a moment before the first chimp appears. Until that moment the animation, though not 100% accurate, and quite oversimplified, is GREAT for a visceral understanding of evolution. We can debate neutral selection and population sizes, but that is what we do. For a regular citizen uninterested in science, this brief movie is sufficient to “grok” evolution. This is a great example of “visual framing” (as opposed to language-based framing). You don’t have to tell all the science. You dont’ have to have your science 100% accurate. But you hit a nerve, and you end up with a convert. Nothing more is needed, though if anyone gets interested, there is plenty of information out there.

Blog Against Theocracy

Neural Gourmet and Blue Gal are organizing a massive blogospheric Blog Against Theocracy weekend:

I’d like invite you all to Blog Against Theocracy. This is a little blog swarm being put together by everybody’s favorite panties blogger Blue Gal for Easter weekend, April 6th through the 8th. The idea is simple. Just post something related to, and in support of, the separation of church and state each of those three days. Something big, something small, artistic, musical, textual or otherwise. The topic is your choosing. Whether your thing is stem cell research, intelligent design/Creationism, abortion rights, etc., it’s all good. Separation of church and state impacts so many issues and is essential.

Two Cultures

Scientists, as a whole, are very reluctant to write novel ideas, hypotheses or data on blogs, and are very slow to test the waters of Open, Source Publishing. Most of what one finds on science blogs is commentary on other peoples’ ideas, hypotheses and data found in journals and mass media.
On the other hand, people in the humanities/literature/art/liberal arts side of campus have long ago embraced blogging as a tool to get their rough drafts out, to refine them upon receiving feedback from commenters, and subsequently publish them in peer-reviewed journals. If you follow History Carnival, Carnivalesque or Philosopher’s Carnival, for example, you have seen many posts that are full-fledged (and full-length) scholarly articles, on their way to “real” publication.
Thus, I found it surprising that it appears the humanities side of the blogosphere is much more reluctant to experiment with some kind of peer-reviewed online publishing model, while the science side appears to be much more enthusiastic about the idea.
This is surprising as there has been gradual evolution – on both science and humanities side of the blogosphere – of the way blog carnivals are done. Besides a few general-interest or geographically limited carnivals, more and more of them are specializing in narrower topics and, thus, require a degree of expertise in the topic in order to participate. I guess that hosts of history and philosophy carnivals received – and promptly rejected – bad posts. I know I did it quite a few times when hosting various science-related carnivals. In several cases, not being really sure and not having relevant expertise on a particular topic mysef, I sent the link to another blogger (and sometimes two or three) for advice about admission into the carnival. That is, for all purposes, peer-review.
Having a peer-reviewed online blog/journal is just the next logical step (unless you have ambitions to start another thing like PLoS).
Putting such a collection together and then turning it into a hardcopy book is something that the science side of the blogosphere did a few months ago, when we put together, as a pretty collective effort, the Science Blogging Anthology. If you recall, the submissions were peer-reviewed. And the next years’ edition, besides having two editors instead of one, will also be peer-reviewed in some fashion (so please send in your entries so we have something to review).
I would love to see this become a more usual kind of thing to do. I’d love to see publication of blogging anthologies collecting the best annual output by medical, environmental, education and humanities bloggers. Will someone do it?
And, of course, making such efforts online, without of the added work of turning it into print, should be even easier, dontcha think?

My picks from ScienceDaily


Want To Monitor Climate Change? P-p-p-pick Up A Penguin!
:

We are used to hearing about the effects of climate change in terms of unusual animal behaviour, such as altering patterns of fish and bird migration. However, scientists at the University of Birmingham are trying out an alternative bio-indicator — the king penguin — to investigate whether they can be used to monitor the effects of climate change.

Scientists Directly Control Brain Cell Activity With Light:

Every thought, feeling and action originates from the electrical signals emitted by diverse brain cells enmeshed in a tangle of circuits. At this fundamental level, scientists struggle to explain the mind. Worse yet, they have lacked tools to understand what’s going wrong in patients with ailments such as depression or Parkinson’s disease. New Stanford-led research published in the April 5 issue of Nature describes a technique to directly control brain cell activity with light. It is a novel means for experimenting with neural circuits and could eventually lead to therapies for some disorders.

In Young Mice, Gregariousness Seems To Reside In The Genes:

Beyond the lineage of primates, according to scientific gospel, social behavior is dictated primarily by competition for resources such as food, territory and reproduction. That may well be true for many adult animals, but in a groundbreaking study researchers from the University of Wisconsin-Madison have found evidence that social interactions among young mice result from basic motivations to be with one another. What’s more, the researchers say, the extent of a young mouse’s gregariousness is influenced by its genetic background.

Reindeer And Snowflakes: NASA Helps During International Polar Year:

Two things that come to mind during wintertime are snowflakes and reindeer. Now, NASA is providing technology to help study both of those in various ways during a kick off of the International Polar Year in Norway. The International Polar Year (IPY) involves over 60,000 researchers whose purpose is to increase knowledge about the Arctic and the Antarctic. Although there have been two prior IPY events in 1882-83 and 1932-33, as well as the International Geophysical Year in 1957-58, the current event is the first to include a focus on changes in the societies of the Arctic indigenous peoples.

ClockQuotes

Punctuality is the thief of time.
– Oscar Wilde

“Why Do You Blog Meme”

I got tagged with a meme by Greg who is trying to track the branching tree of this meme, so go check his post out (especially let him know if you do one of your own). He is also instructing us that the post is supposed to be full of links….
I love blog memes, and I have done many of them, most of which in one way or another reveal “why I blog”: Academic Blog Meme, Beautiful Bird Meme, Random Quotes Meme, Silly Blog Meme, Four Meme, Hanukah meme, Zero Meme, Dirty Thirty Meme, Thinking Blogger Meme, States Meme, Obscure-But-Good-Movies Meme, Four Jobs Meme, The Blogging Blog Meme, Year in Review Meme, Browser Meme, Seven Times Seven Meme or many, different, book, memes.
And I was asked the question why I blog (or something related) a number of times, so you can check my answers, e.g., here, here, here, here, here, here, here, here, here, here and here.
So, why do I blog?
1. I don’t really want to know. Because if I ever learn the real reason, the revelation may be too scary and I may end up quitting blogging. And I don’t want to quit. Sounds like an adict talking, doesn’t it? Yup, I am a blogging junkie.
2. Because I like being “on the computer“. Which means I am communicating with dozens and hundreds of people without having to leave the comfort of my home (or getting out of my pajamas – I really am a stereotypical blogger).
3. Whatever I am doing, wherever I am going, I always have those internal monologues in my head (or sometimes dialogues with myself, but don’t tell my shrink). Sometimes they are rants against right-wing ideology or fundie religion, sometimes they are science lectures… And I always think they are brilliant and should not be forgotten. So I save them here (and the process of writing them makes the arguments better – if not, I don’t click on “Publish”). In short: big ego and lots of feeling of self-importance.
4. Everything I know about politics, ideology, religion, feminism, American history and geography, writing, online technology and how to critically read a scientific paper, I learned by reading blogs (or by getting pummelled by commenters here).
4. Procrastination, procrastination, procrastination. Is there a better reason?
This time I decided, for a change from my usual practice, to tag some of my SciBlings:
Dr. Signout
Karen
Craig
Martin
Enrique
….and the first responses are in:
Dr. Signout
Martin
Craig
Of course, if you were not tagged that does not mean you cannot voluntarily do it anyway. Joseph did.
And so did Tara.