Skepticism doesn’t equal question all teh things

Skepticism doesn’t equal question all teh things

This is a great PSA from the folks who moderate the Science on Google+ community. There is also confusion about love for science and skepticism. As a moderator and someone who writes science posts, I get people who argue that everyone should be a skeptic. However, the list below has no room for skepticism in general. Scientists certainly debate new findings in those areas but the foundations (evolution for example) are not up for debate and skepticism.

Originally shared by Science on Google+

PSA: Evidence-Based Science on Google+

Some scientific facts aren’t up for debate in our science community. As scientists, we follow where the evidence leads, and the overwhelming evidence supports anthropogenic climate change, the efficacy of vaccines, the soundness of evolutionary theory, and the safety of GMO. There is vigorous debate within various scientific disciplines on how these settled areas of science work and what future outcomes of (for example) climate change or evolution will be. However, debate over mechanisms and outcomes should never be considered debate over the basic facts of a subject. A person claiming, for example, that anthropogenic climate change is a hoax is making an extraordinary claim against a huge body of peer-reviewed evidence, and barring extraordinary, credible, peer-reviewed evidence to support that claim, a post making such a claim will be removed from this community. Extraordinary claims require extraordinary proof.

The focus of our community is on research trying to address these issues, and not to rehash or debate the evidence. Unlike politicians, we don’t take positions to win votes or gain popularity. Rather, we ground our positions in the best evidence available to us, recognizing that scientific evidence may be incomplete but is constantly self-correcting. 

What is scientific consensus? :  https://plus.google.com/u/0/+Scienceongoogleplus/posts/5LRg4oTFAFU

Cartoon credit: http://joyreactor.com/post/805720

 

#ScienceSunday  

Need to relocate some wolves

Need to relocate some wolves

With a moose population around 1,200, we need to relocate some wolves to Isle Royale National Park. As the article mentions, too many herbivores without a top predator is not sustainable. Climate change has reduced the number and frequency of ice bridges. That limits the introduction of new wolves to the gene pool. So inbreeding has limited the ability of wolves to maintain their population on the island. #ThanksClimateChange  

edit

You can read more about the wolf repopulation program at Yellowstone National Park here:

http://www.nps.gov/yell/learn/nature/wolfrest.htm

#ScienceEveryday  

http://news.yahoo.com/scientists-3-wolves-remain-isle-royale-national-park-230703927.html

Street View for Art

Street View for Art

Yet another cool project from Google. The I’d like to see the California Academy of Sciences’s collection in person. It reminds me of a National Science Foundation grant I worked on. The primary investigator, Callum Ross at the University of Chicago, needed CT images of primate skulls to model how they chew. The idea was to show how the available diet was an evolutionary force to change their skull/jaw structure. I scanned about 50 skulls in two days. The skulls were on loan from The Field Museum, which has an impressive collection and does research as well.

You can read more here:

Evolutionary forces – Working Together

http://goo.gl/xvXxS

I’ve also worked with the Oriental Institute

Eye of Horus post:

http://goo.gl/qpxyh

Mummy bird images from JP:

http://goo.gl/x5e2S

h/t Yonatan Zunger 

Originally shared by Google Arts & Culture

Today, we’re glad to announce the launch of the new 3D feature on the Google Cultural Institute website: http://goo.gl/1p93XR

You can now admire hundreds of multi-dimensional objects from our six pilot partners’ collections, from the extensive set of animal skulls of the California Academy of Sciences (http://goo.gl/xQyk3F) to the Oldest Mask in the world at The Israel Museum, Jerusalem(http://goo.gl/HtGFhy). #3D #artstech

Happy Pi Day courtesy of Richard Green.

Happy Pi Day courtesy of Richard Green. 

This post reminds me of the memory palace memorization technique. You can read/learn more here:

The Secrets of Sherlock’s Mind Palace via Smithsonian.com

http://goo.gl/LxeaFR

TED talk, Feats of memory anyone can do

http://goo.gl/N2k5fl

#ScienceEveryday  

Originally shared by Richard Green

How to remember 100,000 digits of pi

The retired Japanese engineer Akira Haraguchi (1946–) claims to hold the world record for reciting the most memorized digits of the number pi. He set the record starting at 9am on October 3, 2006, and reached digit number 100,000 at 1.28am on October 4, 2006. 

The event was filmed in a public hall near Tokyo. Haraguchi took 5-minute breaks to eat every two hours, and even his trips to the toilet were filmed to prove that the feat was genuine. This broke Haraguchi’s previous record of 83,431 digits, which he performed from July 1–2, 2005.

The reason I say that Haraguchi claims to hold the record is that, for some reason, the Guinness World Records organization has failed to recognize this achievement, despite the existence of witnesses and detailed documentation. The Guinness-recognized record for reciting pi is 67,890 digits by Lu Chao, a 24-year-old graduate student from China, who recited the digits, without error, in 24 hours and 4 minutes.

Haraguchi’s technique for memorizing long lists of numbers is quite interesting. He assigns kana characters to each number, each of which represents a Japanese syllable. In his system, the digit 0 can be read as o, ra, ri, ru, re, ro, wo, on or oh; the digit 1 can be read as a, i, u, e, hi, bi, pi, an, ah, hy, hyan, bya, or byan; and there are analogous rules for the other digits.

Using this system, Haraguchi has created many stories and poems, including a story about the 12th century hero Minamoto no Yoshitsune. The first 15 digits of pi, which are 3.14159265358979, are rendered in Haraguchi’s system as the words saishi ikokuni mukosan kowakunaku, whose approximate meaning is “the wife and children have gone abroad; the husband is not scared.”

Given all this, it may be surprising to learn that as a child, Haraguchi was neither a prodigy nor a mathematical genius. On the contrary, one of his teachers once made him stand to attention in the hallway as a punishment for badly failing to memorize multiplication tables of one-digit numbers.

Relevant links

Akira Haraguchi: http://en.wikipedia.org/wiki/Akira_Haraguchi

Minamoto no Yoshitsune: http://en.wikipedia.org/wiki/Minamoto_no_Yoshitsune

The Kana writing system: http://en.wikipedia.org/wiki/Kana

A 2006 article from the Japan Times about Haraguchi: http://goo.gl/d4H2pB

It looks as if the article’s URL may change at some point, so you may want to Google the article’s title instead: How can anyone remember 100,000 numbers?

The web site http://pi-world-ranking-list.com/ maintains a list of records of reciting from memory digits of the irrational numbers pi, e, and the square root of 2.

Picture credit: Travis Morgan

Picture source and associated poem: https://www.flickr.com/photos/morgantj/5575500301/in/photolist

#mathematics #piday  

Quantum hype

Quantum hype

Thanks Brian Koberlein for explaining this way better than I could. Once again, the media takes some interesting science news and runs with a few misconceptions.

#ScienceEveryday  

Originally shared by Brian Koberlein

Two for One

There’s been much buzz about a new paper claiming that it’s observed light acting as both a particle and a wave at the same time. Is this legitimate research? Yes, absolutely. Did they actually observe particles and waves at the same time? Well…

Much of the hype around this paper is driven by some basic misconceptions regarding quantum objects. The popular view of quantum theory is that things like photons are sometimes particles and sometimes waves, and which one they become depends upon how you observe them. But in fact quantum objects are neither particles nor waves. They are quanta, which is a separate thing altogether. Under the right conditions quanta can demonstrate wave-like and particle-like behaviors, and there is complementarity between them so that quanta tend to lean toward one or the other in an experiment. But within the formalism of quantum theory, particle-wave duality is a property of the quanta as a whole. Thinking of quanta as particles or waves is far to simplistic when dealing with quantum theory. This is important to keep in mind when popular articles such as this hit the web.

As research areas such as quantum optics and quantum computing developed, we’ve gained tools to really start looking at sophisticated quantum interactions. It’s how we’ve been able to study things like the connection between the uncertainty principle and entropy, or study phase velocity in a quantum system. But since this kind of work isn’t easy to describe in simple terms, it gets hyped as “quantum mechanics gets simpler!” or “speed of light not absolute!” The same is the case here.

So what’s really going on in this work? The team pulsed laser light at a tiny wire of conductive material (a nanowire). The light induced what is known as surface plasmon polaritons in the nanowire, which is basically an electromagnetic wave pattern within the electrons of material. Because of the size of the nanowire, the plasmon polaritons form a standing wave within the wire, which is where the “wave” aspect comes into the experiment. They also radiate light, which in a quantum sense means that photons are emanating from this standing wave. The team then aimed a beam of electrons at the set up. Some of the electrons collided with the emanating photons, and thus gained some energy. Since these collisions are particle-like, they gain specific (quantized) energy amounts from the induced photons.  Basically the team found a way to induce particle-like interactions while maintaining the overall wave aspect of the system at the same time.

Does this mean the team caused a specific photon or electron to behave as a particle and wave at the same time? No. The particle interactions with the electrons and the induced wave pattern in the wire are two separate aspects of the system. But their result is useful because it could allow us to study quantum interactions directly. This type of work is really useful for photonics and quantum computing, and it’s a clever way to interact with quantum systems.

But this is not an experiment that somehow violates quantum theory. We’ve known for a while that we should be able to do this kind of thing in theory. The achievement here is that they actually pulled it off.

Paper: L Piazza, et al. Simultaneous observation of the quantization and the interference pattern of a plasmonic near-field. Nature Communications 6:6407 DOI: 10.1038/ncomms7407 (2015)

https://briankoberlein.com/2015/03/04/two-for-one/

All kinds of awesome, in currency

All kinds of awesome, in currency

This would be amazing currency. Naturally I’m smitten by the bird skeleton image. Speaking of Hungary and x-ray CT, I should be getting my PET/CT scanner from Budapest next week. It isn’t mine but I’m responsible for it and the facility it’s going in.

h/t Yonatan Zunger 

Originally shared by Colossal

Check out this killer concept for Hungarian banknotes created by a graphic design student for her MA degree project. Currency, copperplate etchings, uv lights, flora & fauna, and an abundance of passion.

http://www.thisiscolossal.com/2015/02/hungarian-banknote-concept-designed-by-barbara-bernat/

You are entitled to your own opinions but not to your own facts

You are entitled to your own opinions but not to your own facts

I hope the backlash against anti-vaxxers has a positive outcome, i.e., they stay out of the public or get vaccinated. There is ignorance about how the immune system works and therefore how vaccines work. Some anti-vaxxers claim that the Amish don’t get sick and do not vaccinate but that’s not correct. They suffer from some horrible diseases. Here’s an interesting article from The Atlantic (h/t Mary Mangan) 

https://plus.google.com/u/0/+MaryMangan/posts/X1SkdjrxDgJ

Here’s a two-second primer on the immune system:

Exposure to a foreign body (antigen) causes the immune system to generate antibodies. The antibodies identify the antigens so that your immune system (T cells) can remove the foreign body. In the case of naturally acquired immunity, you are exposed to the live virus, e.g., influenza. In the case of a vaccine, you are given an attenuated virus, i.e., one that cannot replicate. Would you rather go to a so called Chicken Pox party and get real Chicken Pox or get the vaccine where you have milder symptoms if you get Chicken Pox at all? It’s true that not all vaccines are 100%. That’s partly due to biodiversity. It should be easy to understand that we all aren’t identical. However, in the case of measles, the vaccine is 95% effective and measles is one of the most contagious diseases, more than ebola. If you are not vaccinated, you have 90% chance of getting measles.

Herd immunity is essential for those who can’t get vaccinated because they are too young or are allergic. Read more about herd immunity here:

If you have a minute, really just 60 seconds, and you want to learn what herd immunity is

https://www.youtube.com/watch?feature=player_embedded&v=brNscgAG3Nc

More on Herd Immunity if you have more time

http://www.health.harvard.edu/video/herd-immunity/

For those who actually want to be educated, here’s a great article from Liza Gross

Doubt and Denialism: Vaccine Myths Persist in the Face of Science

http://goo.gl/f7Y1f

Regarding thimerosal as a preservative in vaccines:

Furthermore, all new vaccines licensed since 1999 are free of thimerosal as a preservative

http://goo.gl/v0KRe

Yet the rate of autism increases? Where’s the link? There is none.

https://plus.google.com/+livescience/posts/iqzXqH1eHwC

And you are aware of the increase in Pertussis in Washington state due to anti-vaxxer parents? Here’s how science is presented (by Philip Plait) 

http://goo.gl/8xRa7

Here’s a few more links:

Tussle with Pertussis – Whooping cough

http://goo.gl/b8wWHn

It does matter, Alijah should not have been in ICU

http://goo.gl/cvknyY

Finally, I’ll point you to as disturbing story about anti-vaxxers going after a family that lost their infant to whooping cough. http://goo.gl/saspV

#ScienceSunday  

Originally shared by Yonatan Zunger

As a measles outbreak spreads across the US, with 14 states now affected, the advocates of letting deadly epidemics run wild are finding themselves suddenly unpopular:

Members of the anti-vaccine movement said the public backlash had terrified many parents. “People are now afraid they’re going to be jailed,” said Barbara Loe Fisher, the president of the National Vaccine Information Center, a clearinghouse for resisters. “I can’t believe what I’m seeing. It’s gotten so out of hand, and it’s gotten so vicious.”

This is not, to be honest, an unreasonable fear: it turns out that when you recklessly engage in conduct which places another person (or the general public) in danger of death or serious bodily injury, you may well have a reason to fear that people might want you to go to jail. The technical term is “reckless endangerment.” And when people — especially children — start actually dying because of your actions, you may well have reason to fear that your neighbors may suggest that you find some other neighbors, starting right away.

The reaction to this outbreak has, however, offered me some real hope. I suspect that as soon as people remember just why people were so terrified of these diseases, the popularity of the “anti-vaccine” movement is likely to plummet, largely at the hands of people who don’t feel like being put in mortal danger by their neighbors’ fears. Hopefully, this movement will be gone and forgotten before too many people die. (But I want to be honest here: people are going to die. Mostly kids.)

We should recognize that there are real access problems in some parts of the country: the government pays for vaccines but not the doctor’s time, and if you get paid by the hour and don’t have a car, simply the time to go to the doctor is a major factor. But we know how to fix these problems: the mobile vaccination stations that helped end the polio epidemic of the 1950’s are proof of that.

The best proof by far, though, is that some states are doing a great job to this day. It turns out that the winner is Mississippi, which has managed to achieve a 99.7% immunization rate for the most serious diseases! They’ve done this through a combination of a strong public health program and not messing around with their laws. You can read more about what they’ve done, and how they stack up against other states, at http://wpo.st/QKT20 .

I suggest a three-point strategy:

(1) Make sure that the CDC-approved vaccine schedule is available to every person. Task an agency with achieving as close to 100% coverage as possible; the only people who shouldn’t be getting these are people for whom there is a medical reason not to.

(2) Educate the public about what’s going on and why. Don’t be afraid to pull out the old videos and show people of just why measles is not a “thing you just get over.” 

(3) Starting in areas where vaccination is already reliably available, and ultimately spreading to all areas of the country, impose criminal liability for the deliberate failure to vaccinate without medical reason, under existing laws for reckless endangerment and/or child endangerment. 

My parents and their generation got to watch their families and their friends die from these diseases. I don’t want to do the same.

h/t to Kyla Myers for the WaPo article about Mississippi’s success. Another very interesting article to read is http://goo.gl/BYp3iF, from the Journal of the American Academy of Physician Assistants, which goes through the reasons why people aren’t getting vaccinated and proposes several ways to help fix it. Thanks to James Salsman for that one.

Special thanks to Steve Esterly for his thorough critique of a previous version of this post, and in particular catching that I had misinterpreted the JAAPA article in a rather important way. 

http://www.nytimes.com/2015/01/31/us/vaccine-critics-turn-defensive-over-measles.html?_r=1

Skepticism doesn’t equal question all teh things

Skepticism doesn’t equal question all teh things

This is a great PSA from the folks who moderate the Science on Google+ community. There is also confusion about love for science and skepticism. As a moderator and someone who writes science posts, I get people who argue that everyone should be a skeptic. However, the list below has no room for skepticism in general. Scientists certainly debate new findings in those areas but the foundations (evolution for example) are not up for debate and skepticism.

Originally shared by Science on Google+

PSA: Evidence-Based Science on Google+

Some scientific facts aren’t up for debate in our science community. As scientists, we follow where the evidence leads, and the overwhelming evidence supports anthropogenic climate change, the efficacy of vaccines, the soundness of evolutionary theory, and the safety of GMO. There is vigorous debate within various scientific disciplines on how these settled areas of science work and what future outcomes of (for example) climate change or evolution will be. However, debate over mechanisms and outcomes should never be considered debate over the basic facts of a subject. A person claiming, for example, that anthropogenic climate change is a hoax is making an extraordinary claim against a huge body of peer-reviewed evidence, and barring extraordinary, credible, peer-reviewed evidence to support that claim, a post making such a claim will be removed from this community. Extraordinary claims require extraordinary proof.

The focus of our community is on research trying to address these issues, and not to rehash or debate the evidence. Unlike politicians, we don’t take positions to win votes or gain popularity. Rather, we ground our positions in the best evidence available to us, recognizing that scientific evidence may be incomplete but is constantly self-correcting. 

What is scientific consensus? :  https://plus.google.com/u/0/+Scienceongoogleplus/posts/5LRg4oTFAFU

Cartoon credit: http://joyreactor.com/post/805720

 

#ScienceSunday  

Clean up on aisle 9

Clean up on aisle 9

Once again, The Telegraph sensationalizes scientific news that doesn’t need it. The work done by Dr. Katrin I. Andreasson’s group at Stanford is exciting enough. The Telegraph doesn’t have to use a title that suggests they have a cure for Alzheimer’s Disease (AD). I’ll admit they didn’t do a terrible job. I’ve got worse examples below. So what’s really going on? The researchers at Stanford found that a particular cell signaling pathway, cyclooxygenase/prostaglandin E2 (COX/PGE2) pathway, was involved with restoring the function of microglial cells.

☼ What are microglial cells?

Glial cells are “support” cells in the brain, as they surround neurons, providing the mylein sheath (think of it as electrical insulation). Microglial cells are scavengers in the brain, like macrophages. In fact microglial cells (like the image below) are more like macrophages than they are like glial cells.  It’s thought that microglial cells are less efficient in older animals and therefore cannot clear as much debris from the brain. In particular, beta-amyloid is thought to accumulate in Alzheimer patients eventually causing dementia. If the microglial cells could resume their clean up job then the beta-amyloid wouldn’t accumulate.

☼ Cyclooxygenase/prostaglandin E2 (COX/PGE2) pathway

I’m not an expert in cell signalling so I’ll just highlight the important bits. Again, since microglial cells are more similar to macrophages than neurons, it was hypothesized that an inflammatory response was involved with microglial function. COX1 and COX2 along with PGE2 are known components of an inflammatory signaling pathway. More importantly, it’s related to aspirin and aspirin was shown to be beneficial to preventing onset of dementia in AD patients. There’s a catch though. There’s always a catch. Aspirin only helps if AD is detected early. That’s one of the biggest stumbling blocks to AD research, early detection (more on that below). The Stanford group found that if you block EP2 signalling (it’s part of the PGE2 pathway), you can restore the function of microglial cells and they can resume clean up on aisle 9.

So how did they do this? They did some in vitro work, i.e., work with macrophage cells in a dish to start identifying part of the cell signalling. They also did work with genetically altered mice, the so-called knock-out mice, to see if blocking certain parts of the pathway restored function of the microglial cells. Combined, their work suggests that blocking EP2 restores microglial function and memory impairment is reduced.

So this is very promising work but it is not a cure for AD. They have to identify an EP2 blocking agent, make sure it works in mice. Make sure it isn’t toxic in mice and one large species. Then they have to do toxicology studies in humans before even thinking of testing on AD patients. Notice how the titles of the articles become less sensational when you compare them?

References:

Has Stanford University found a cure for Alzheimer’s disease? via The Telegraph

http://goo.gl/hVnGcf

Blocking receptor in brain’s immune cells counters Alzheimer’s in mice, study finds Stanford press release

http://goo.gl/L1PUyt

Prostaglandin signaling suppresses beneficial microglial function in Alzheimer’s disease models

https://www.jci.org/articles/view/77487

Want to learn more about Alzheimer’s Disease?

Alzheimer’s Disease Research

https://plus.google.com/+ChadHaney/posts/ddm3JqPMy76

Want to learn more about how drugs are developed and see another example of hype from The Telegraph?

Bench to Bedside

http://goo.gl/63mKa

Another example of media hype.

Alarming science discovery…

http://goo.gl/sLjT5

Image source:

http://individual.utoronto.ca/lyanneS/invitro.html

#ScienceSunday  #ScienceMediaHype