Monthly Archives: December 2010

Crowdsourcing science funding cuts in the US

There’s a variation of an old political game being played out in the US these days. I can’t remember exactly the last time Canadians played it but here’s the setup, a politician looks up the grant information for a funding organization such as the Social Sciences and Humanities Research Council in Canada, scans the titles for the research papers, picks out a few at random, holds them up for ridicule and as an example of poor government investment, then asks the public to speak out or protest this waste of money.

Recently in the US, the Republican party decided to create a website titled, YouCut (I appreciate the word play on the YouTube brand), featuring a video of a very personable politician holding up a few recent research grants from the National Science Foundation (NSF) as examples of ridiculous research and a waste of money. The site also features instructions for how citizens can look up NSF research grants for themselves and nominate their choices to be included in a YouCut report.

Pasco Phronesis (David Bruggeman) outlined concerns about the program’s execution (he notes that the US politician spearheading is looking at a wide range of government programmes, not just NSF funding)  in a Dec. 3, 2010 posting,

The execution of this project is pretty lousy, targeted at political outcomes much, much more than making meaningful policy changes. Looking at the targeted programs in the YouCut program, most of them are relatively small in terms of funding (this week’s candidates are all under $50 million – a tiny fraction of a percentage point of the federal budget), and many seem to be targets more for political purposes than actual fraud, waste, unnecessary duplication or abuse. The reporting mechanism is particularly lousy as it won’t be able to collect any meaningful data about grants or programs. It’s more about what people don’t like, without room for any explanation. Finally, a program like this, placed on the website of a political operation, makes it really easy to politicize the whole thing, and roll it into some pale imitation of Senator William Proxmire’s grandstanding back in the 1980s. ‘Great soundbites’ lousy policies.

Pasco Phronesis goes on to support the principle of asking for feedback,

That said, I see no reason why the public shouldn’t provide feedback to the National Science Foundation (NSF) and its grantees about grant proposals that they think are duplicative or wasteful. It is public money being spent, and if grantees can’t explain their work to the public, I don’t think they’ve earned the right to it. There is the matter of how such feedback is conducted.

Dan Vergano in his USA Today article about politicians and science funding, How some politicians stumble on science, gives a little more detail about the ‘ridiculous’ research cited in the YouCut video,

So, as you might expect, when we asked the National Science Foundation about the two grants that Smith [Republican politician] mentioned, we learned a little more about them.

For example, the soccer study turns out to be computer scientists studying how remotely connected teams form to conduct “nanoscience, environmental engineering, earthquake engineering, chemical sciences, media research and tobacco research.”

And the “breaking things” study turns out to be acoustics experts ” pursuing fundamental advances in computational methods while solving several particularly challenging sound rendering problems,” so that the U.S. military, among others, can create more realistic combat simulators for troops.

“These aren’t about soccer research,” says the NSF’s Maria Zacharias. “All of these projects go through our very rigorous peer-review process,” she adds, part of what made the NSF the only one of 26 federal agencies to receive a “green” rating from the Bush administration in its initial rating of government management practices.

Vergano concludes his article by noting that history behind some of these tensions in the US,

Since 1950, when NSF was founded, a tension has existed between the decision made then that peer review — scientists scoring each other’s work to fund the most worthy efforts — would be the way to fund research, rather than doling it out as earmarks from politicians, which was the other big idea favored by some then. “Experts are in a better position to know what’s worth the money and what isn’t,” Teich [Al Teich, science budget expert for the American Association for the Advancement of Science] says.

Zacharias suggests that researchers need to work harder to let the public know “lab mice, soccer players, other critters” are just tools for scientists trying to answer complex questions, not an end in themselves.

“In the laboratory there are no fustian ranks, no brummagem aristocracies,” wrote Twain, putting it a bit more elegantly. “The domain of Science is a republic, and all its citizens are brothers and equals.”

From a science communication perspective, the YouCut website/video, the discussion on the Pasco Phronesis blog, and the article by Dan Vergano provide some useful insight.

Nano-sized Christmas decorations or creative writing?

The opening line certainly caught my attention (from the Dec. 3, 2010 news item on Nanowerk),

They might just be the smallest Christmas tree decorations ever. Tiny spherical particles of gold and silver that are more than 100 million times smaller than the gold and silver baubles used to decorate seasonal fir trees have been synthesized by researchers in Mexico and the US.

I was expecting to see an image of these baubles on a nano -sized tree but I was doomed to disappointment.  The reference to Christmas decorations is a flight of fancy and the story rapidly progresses in another direction,

Writing in the December issue of the International Journal of Nanoparticles, materials engineer Xavier E. Guerrero-Dib, of the Universidad Autónoma de Nuevo León and colleagues there and at The University of Texas at Austin, describe the formation of gold, silver and alloyed, bimetallic nanoparticles just 25 nanometers in diameter. They used vitamin C, ascorbic acid, commonly found in tangerines, a favorite stocking filler in many parts of the world, and a soap-like, surfactant molecule known as cetyltrimethylammonium bromide, an antiseptic occasionally used in expensive cosmetics.

Reaction of silver nitrate and the gold compound chloroauric acid under these conditions led to successive reduction of the metals and the formation of different silver, gold and bimetallic nanoparticles. The precise structures of the nanoparticles were revealed using a high-resolution elemental mapping technique. The analysis shows the nanoparticles to have multiple layers, shells of gold within silver within gold, in the case of the bimetallic particles and some blending, or alloying, of the metals occurred.

I like how they kept the Christmas theme going with the reference to tangerines and stocking stuffers. As for the technology, this is the first time I’ve heard of silver and gold being combined to create a bimetallic particle.

Elemental difference: a bacterium that lives on arsenic

[ETA Dec. 8, 2010: The ‘arsenic bacterium’ story noted has been corrected in my Dec. 8, 2010 posting. The conclusions first reported do not seem to be supported by the evidence in the article.] There’s a podcast over at The Guardian science blogs that features last week’s story from NASA (US National Aeronautics and Space Administration) about a bacterium, living deep in a California Lake, that uses arsenic instead of phosphorus in its molecular makeup. From the Dec. 2, 2010 article by Alok Jha for The Guardian newspaper,

A bacterium discovered in a Californian lake appears to be able to use arsenic in its molecular make-up instead of phosphorus – even incorporating the toxic chemical into its DNA. That’s significant because it goes against the general rule that all terrestrial life depends on six elements: oxygen, hydrogen, carbon, nitrogen, sulphur and phosphorus.  These are needed to build DNA, proteins and fats and are some of the biological signatures of life that scientists look for on other planets. [emphases mine]

Christened GFAJ-1, the microbe lends weight to the notion held by some astrobiologists that there might be “weird” forms of life on Earth, as yet undiscovered, that use elements other than the basic six in their metabolism. Among those who have speculated is Prof Paul Davies, a cosmologist at Arizona State University and an author on the latest research.

“This organism has dual capability – it can grow with either phosphorus or arsenic,” said Davies. “That makes it very peculiar, though it falls short of being some form of truly ‘alien’ life belonging to a different tree of life with a separate origin. However, GFAJ-1 may be a pointer to even weirder organisms. The holy grail would be a microbe that contained no phosphorus at all.”

As the pundits note, this changes some fundamental ideas we have about life on this planet and elsewhere.

Getting back to the podcast, the hosts also cover stories about the neanderthals and the [UK] Natural History Museum’s new approach to telling the story of evolution using a ‘kid-proof iPad’.

Reading multilingual science articles

I have longed to access science materials in languages I don’t read (and while I don’t think this particular tool is going satisfy that need), I am delighted to hear of a new tool that reaches across linguistic barriers to aid science understanding. From the Dec. 2, 2010 news item on Nanowerk,

A new set of tools released today by Science-Metrix Inc. seeks to improve the way we talk about and understand science – from the classroom to the boardroom. The US/Canada-based research evaluation firm has developed a new, multi-lingual classification of scientific journals, which is accompanied by an interactive web tool.

The interactive ‘Scientific Journals Ontology Explorer’ allows users to visualise the links between 175 scientific specialties in 18 languages, from Arabic to Swedish. The journal classification, which covers 15,000 peer-reviewed scientific journals, was translated by more than 22 international experts who volunteered their time and expertise, making the tools available to a worldwide audience.

This set of tools has applications beyond academia, such as for governments and firms tracking their performance in specific fields, as well as in science outreach and education.

“We hope this visualization tool will be used by teachers to show students how science spans a broad universe and how interlinked scientific research really is” says Eric Archambault, president of Science-Metrix. “By sharing this tool with the wider community, we also hope to foster discussion and research on the contemporary scientific system, and promote a greater understanding of science dynamics.”

This classification provides a timely representation of the structure of modern science by including not only the traditional areas of scientific inquiry, but also the more contemporary areas of research such as biotechnology and nanotechnology and enabling fields such as epidemiology.

I’d be willing to bet that Science-Metrix was founded either in Canada and/or by Canadians, from the About Us/Management page,

Éric Archambault, Ph.D.
President and CEO | Chief Executive Officer

Jean-François Bergeron, M.B.A.
COO and CFO | Chief Operation and Financial Officer

Frédéric Bertrand, M.Sc.
Vice-President, Evaluation

Grégoire Côté, B.Sc.
Vice-President, Bibliometrics

You’ll note the names and that all diacritic marks (accents) are included, plus one of the head offices is in Montréal, Québec.

As for the Scientific Journals Ontology Explorer, you can find it here.

Phylo and crowdsourcing science by Canadian researchers

Alex Kawrykow and Gary Roumanis from McGill University (Montréal, Québec) have launched Phylo, a genetics game that anyone can play but is actually genetic research. From the article by Neal Ungerleider at the Fast Company website,

The new project, Phylo, was launched by a team at Montreal’s McGill University on November 29. Players are allowed to recognize and sort human genetic code that’s displayed in a Tetris-like format. Phylo, which runs in Flash, allows users to parse random genetic codes or to tackle DNA patterns related to real diseases. In a random game, a user found himself assigned to DNA portions linked to exudative vitreoretinopathy 4 and vesicoureteral reflux 2.

Players choose from a variety of categories such as digestive system diseases, heart diseases, brain diseases and cancer. All the DNA portions in the game are linked to different diseases. Once completed, they are analyzed and stored in a database; McGill intends to use players’ results in the game to optimize future genetic research.

This reminds me of Foldit (mentioned in my Aug. 6, 2010 posting) another multiplayer online biology-type game; that time the focus was protein folding. As Ungerleider notes in his article, gaming is being used in education, advertising, and media. I’ll add this,  it’s also being used for military training.

I was interested to note that the McGill game was made possible by these agencies,

* Natural Sciences and Engineering Research Council of Canada
* McGill School of Computer Science
* McGill Centre for Bioinformatics
* McGill Computational Structural Biology Group

On a side note, there’s another biology-type game called Phylo, it’s a trading card game designed by David Ng, a professor at the University of British Columbia. From the Phylo, trade card game About page,

What is this phylo thing? (Some interesting but relatively specific FAQs here)

Well, it’s an online initiative aimed at creating a Pokemon card type resource but with real creatures on display in full “artistic” wonder. Not only that – but we plan to have the scientific community weigh in to determine the content on such cards, as well as folks who love gaming to try and design interesting ways to use the cards. Then to top it all off, members of the teacher community will participate to see whether these cards have educational merit. Best of all, the hope is that this will all occur in a non-commercial-open-access-open-source-because-basically-this-is-good-for-you-your-children-and-your-planet sort of way.

The Phylo, trading card game is in Beta (for those not familiar with the term beta, it means the game is still being tested, so there may be ‘bugs’).

It’s nice to be able to report on some innovative Canadian crowdsourcing science.

Royal Society celebrates 350 years

“From the Enlightenment, through the Industrial Revolution and into today’s Age of Information, science has been critical to every aspect of our development over the past 350 years – and the Royal Society has been at the forefront of the scientific world throughout that time,” reads Lord Rees of Ludlow’s introduction to the ‘Science sees further‘ report released Nov. 30, 2010 the same day as the Royal Society’s 350th anniversary.

Thanks to GrrlScientist’s Nov. 30, 2010 posting at Punctuated Equilibrium (one of The Guardian’s science blogs) for leading me to this report.  I took a brief glance at ‘Science sees further’ and found a series of essays that focus on everything from extraterrestrial life to stem cell therapy to environmental issues.

I also discovered the Royal Society’s Trailblazing site (from the site’s front page),

Welcome to Trailblazing, an interactive timeline for everybody with an interest in science. Compiled by scientists, science communicators and historians – and co-ordinated by Professor Michael Thompson FRS – it celebrates three and a half centuries of scientific endeavour and has been launched to commemorate the Royal Society’s 350th anniversary in 2010.

Trailblazing is a user-friendly, ‘explore-at-your-own-pace’, virtual journey through science. It showcases sixty fascinating and inspiring articles selected from an archive of more than 60,000 published by the Royal Society between 1665 and 2010.

Congratulations to the Royal Society on reaching 350 years! This has to be a record of some kind.

A symphony of science through music

A Symphony of Science is an independently produced website where John Boswell features music/science video mashups or remixes. From the website’s About page,

Hey – I’m John Boswell, the head musician and producer behind the Symphony of Science. The goal of the project is to bring scientific knowledge and philosophy to the public, in a novel way, through the medium of music. Science and music are two passions of mine that I aim to combine, in a way that is intended to bring a meaningful message to listeners, while simultaneously providing an enjoyable musical experience.

The project owes its existence in large measure to the wonderful work of Carl Sagan, Ann Druyan, and Steve Soter, with their production of the classic PBS Series Cosmos, as well as all the other featured figures and visuals.

Inspiration from The Gregory Brothers and DJ Steve Porter, coupled with my experience with remixing, composition, and auto-tune, led to experiments with remixing scientists, culminating in Carl Sagan’s “A Glorious Dawn” in Fall of 2009.

This first video’s highly positive reception provided motivation to elaborate on the theme of remixing scientists, which spawned the Symphony of Science project. The second video, “We Are All Connected”, was released in October 2009 on the heels of A Glorious Dawn with much success. Although the methods of remixing and tuning spoken word, combined with original electronic music and similarly themed footage, are unorthodox in the context of other science-themed music, the results have often been inspiring, humbling, and of course humorous.

I found this site thanks to GrrlScientist’s Dec. 1, 2010 posting on the Punctuated Equilibrium blog (one of The Guardian’s science blogs) where she features Boswell’s latest video in the series, A Wave of Reason. From the posting,

This video features noted scientists and thinkers, Carl Sagan, Bertrand Russell, Sam Harris, Michael Shermer, Lawrence Krauss, Carolyn Porco, Richard Dawkins, Richard Feynman, Phil Plait, and James Randi.

Lyrics:

Russell:

When you are studying any matter
Or considering any philosophy
Ask yourself only: what are the facts,
And what is the truth that the facts bear out

Dawkins:

There is a new wave of reason
Sweeping across America, Britain, Europe, Australia
South America, the Middle East and Africa
There is a new wave of reason
Where superstition had a firm hold

Here’s another Symphony of Science video, Poetry of Reality (An Anthem to Science),

The videos are available for download both from the Symphony of Science (SOS) website or from YouTube. From the SoS website,

Continuation of the videos relies on generous support from fans and followers. You can make a donation if you wish to contribute support to the project. Thanks to everybody who has donated – enjoy what you find!

I enjoyed the videos although I do think they are weighted towards a perspective which tends to ridicule philosophies that aren’t sufficiently scientific as per the likes of Richard Dawkins. It would be nice to see some scientists from outside the UK and the US represented but I suspect that has something to do with the availability of material. Boswell notes a debt to a specific PBS series, which limits the possibilities, and I imagine that he cannot afford to fly around the world to film material especially for this series.