Third Mahato Viz Contest, Deadline Oct. 21

2011 People's Choice "Cold Atom Cloud," by Yinghi Zhang - Duke Graduate Student in Physics

Nearly 5 years after the tragic death of engineering graduate student Abhijit Mahato, the Duke community will once again honor his memory with a photography and visualization contest.

Deadline for entries is October 21, 2012. Rules are here: http://mahato.pratt.duke.edu/contest

This year’s awards ceremony and exhibit of entries will be Nov. 7 at 5 p.m. in Schiciano Auditorium. The keynote speaker at this year’s event will be Kellar Autumn, professor and chair of biology at Lewis & Clark College, who led a research team that discovered the trick gecko feet use to stick to any surface without an adhesive.

The first two contests produced a spectacular collection of beautiful images from scientific research to exotic locations to mundane objects like lightbulbs and jelly glasses viewed in startling new ways.

 

Learn More: http://mahato.pratt.duke.edu/

A “Neurodiverse” View of Poetry

By Ashley Mooney

Why is an English professor working with brain scientists? To change our understanding of the interaction between autism and poetry.

Autism spectrum disorder is often characterized by an inability to comprehend figurative language, especially metaphors. But poet Ralph Savarese, an associate professor of English at Grinnell College currently doing a residency with the Duke Institute for Brain Sciences as a Mellon Humanities Writ Large Fellow, has found the exact opposite to be true in his interactions with people who have autism.

“One of the supposed symptoms of autism is an inability to deal with figurative language—metaphor, simile, irony, jokes—and what I can tell you is, it is not true about certain autistic subtypes, particularly literate classical autistics,” he said.

Literate classical autistics are the most severely autistic, and often nonspeaking. Savarese, who also teaches creative writing workshops to people with autism, noted that although it often takes years to teach these people how to read, once learned “there is absolutely no failure of figurative knowledge, indeed just the opposite is enormous sensitivity to metaphor [and] simile.”

Poetry is not abstract, but rather is about the concrete particulars of life, Savarese said, which lines up nicely with an autistic neurology. He noted that poetry or lyrical language could serve as a neurocosmopolitan meeting place. Neurocosmopolitanism means to be comfortable with various neurologies.

“What would [neurocosmopolitanism] mean as a doctor or as an English professor who might have somebody with autism in his classroom?” he asked. “It’s not just that I’m demanding that autistics learn how we do things, it’s that we learn how they do things.”

What would it mean to be comfortable with all matter of neurologies, what would it mean to find common ground or talk or find a way to communicate respectfully with somebody whose brain is different, he added.

Rather than seeing disability as “an occasion for pity or demonization,” Savarese instead reframes autism as a type of neurodiversity—a neurological difference.

“For the last 30 years we’ve had this notion of diversity drilled into us, why not neurodiversity,” he said. “It’s true that autistics can do some things better than us and some things worse than us.”

Unlike 30 years ago, there are now many people who have autism across the spectrum who have written about their experiences, he said. With a large volume of literature at hand, people can now familiarize themselves with both the traditional medical view from an outsider’s perspective and insider accounts. He added that people should familiarize themselves with both because they generate different notions of the world.

Savarese has a personal connection to autism. His adopted son DJ is nonspeaking autistic who types to communicate. DJ, who started school at Oberlin College three weeks ago, is also the first nonspeaking autistic person to ever get into a highly selective college, he said.

“It’s not that I’m unrealistic—I’ve lived with the challenges of autism for 14 years,” Savarese says. “I’m not saying there aren’t significant challenges with autism, but I refuse to describe autism in the way that it has been typically described.”

He noted that although his son has significant motor and communication challenges, his memory and pattern recognition are astonishing. “His memory is photographic, and he’s just like, ‘are you kidding me, you all are retarded.’”

Savarese noted that the struggle in how to treat people with autism was exemplified in an interview that his son did. In the interview, he was asked if autism should be treated, and DJ typed in response, “yes, treated with respect.”

Although the most famous disability rights adage is “nothing about us without us,” he said, adding that there is a division between the literature written by autistics and scientific research that rarely makes an appeal to those with autism.

“What you see is somebody a lot like you or me going to some other culture that is very different from our own and insisting that culture operate the way that ours does,” he said. “Almost everything that I stand for is in opposition to many of the ideas [of what autism is] and the ways in which the ideas have been propagated. There is this idea autistics have no awareness of the self or others…. I just don’t buy it.”

Taking a ‘DiVE’ into Neutrinos

Physicists can now analyze neutrino events, such as this one, in 3D. Courtesy: Berkeley Lab.

By Ashley Yeager

Using a virtual, 3D environment, scientists are getting their closest look yet at neutrinos’ interactions with matter.

Neutrinos are subatomic particles that “interact with matter only very rarely, maybe once in your body in your entire lifetime,” said Duke physicist Kate Scholberg during a Sept. 21 talk, which the Visualization Technology Group hosted.

Scholberg explained that to study neutrino interactions, scientists use large, underground detectors, which may only record one event per day. That might not seem significant. But, as Scholberg explained, scientists need to observe the events to determine how the universe developed with more matter than anti-matter, a phenomenon that allows life to exist.

Typically, Scholberg and her colleagues analyze neutrino interactions from their Japan-based detector Super-K in a two-dimensional computer program. Recently, however, Scholberg “stepped” into the Duke immersive Virtual Environment, or DiVE, a six-sided, cave-like, virtual-reality theater programed with data from Super-K.

Inside, Scholberg got her first look at neutrinos interactions in 3D. She was able to see a representation of Super-K and thousands of its light detectors. She could also see data from a recent neutrino event and was able to walk around the detector simulation and visualize the neutrino interaction from all sides. The software had even traced out the “sonic boom” of light, which looks like a circle in two-dimensions and a cone or ring in three-dimensions, given off after a neutrino event.

“This is what I’ve imagined happens a million times after an interaction,” Scholberg said, showing a video of her experience in the DiVE. “It’s entirely different seeing it in 3D,” she said, adding that the drawing of the cone shape of a Cherenkov ring has never been done in a neutrino event display before.

Benjamin Izatt a student at the University of California, Berkeley was the mastermind who developed the 3D neutrino simulation, called Super-KAVE. He designed it to help Duke physicists explain their neutrino research to the public.

But, Scholberg said, the tool may also help her and her collaborators at Super-K better understand complex neutrino interactions and sort out where the particles’ rings and cones overlap. She added that in future simulations, “we may also be able to see particles and interact with the particles, which would be not only fun, but helpful.”

Sleuths Take Over Science This Summer

Story and Photos by Gabriel Aikens, NCCU Summer Intern

Science Sleuths Lance Cook, Alex St. Bernard, and staff member Emily Milligan work together on dissecting a cow's ankle, called the fetlock.

While many teens spend their summer days playing Xbox and watching cartoons, some eighth and ninth graders are constructing catapults and dissecting cow knuckles as part of Summer Science Sleuths at Duke, a two-week program that exposes kids from across the country to science in fun and creative ways.

On a recent Thursday morning inside the Biological Sciences Building, the kids dissected cow fetlocks, which are similar to the upper knuckle joints in a human hand. There were looks of amazement, curiosity, and disgust as Dean Aguiar, program director at The Hartwell Foundation, demonstrated proper procedure with the fetlock.

“Feel free to take one home to barbeque,” Aguiar joked. Some of the kids weakly smiled, but overcame their queasy feelings the more they operated on the fetlock with their scalpels.

“It was cool,” said ninth grader Samantha Goetz from Cream Ridge, New Jersey. “The activity is similar to what I want to do when I get older, like surgery and such.”

Dean Aguiar, program director at The Hartwell Foundation, demonstrated proper procedure on the fetlock to sleuth Natalia LeMay.

The point of the dissection was to have a better understanding of joint movement, as well as identify bone cartilage, ligaments, and synovial fluid, which is a lubricating liquid inside the joint that provides nutrients to joint tissues.

On other days during the two-week camp, the Sleuths created solar ovens, built rafts, and visited the Videri Chocolate Factory in Raleigh to learn how chocolate is made. The kids were housed in dorms at Duke and had picnics and cookouts on campus, as well as dinner at the Durham Bulls Athletic Park.

To be considered for selection to participate in Summer Science Sleuths at Duke, campers completed a survey on attitudes toward science, had a parent submit an application and had a teacher complete the recommendation form.

“This is the second year of the Summer Science Sleuths at Duke program,” said Chris Adamcyzk, executive director of the Duke Center for Science Education and creator of the program. “We want to make science fun for the kids,” she says. “ We carefully design the curriculum so that they can be introduced to a breadth of science, while making connections to their real world. Although they do experiments in the lab, they also interview scientists and take field trips to connect interesting science with everyday life.”

Fetlocks are similar to human knuckles, but a whole lot larger.

Making science fun for the kids is also the goal of Frederick Dombrose, President of The Hartwell Foundation, which funds the program.

“This wasn’t designed for kids who were at the top of their science class,” he said. “We created this for bright kids who have an interest in science so we can inspire them. This is an opportunity that most of them would’ve never been exposed to, so we want them to enjoy themselves and take advantage of this.”

‘Chicken’ Logic Secures Planes, Trains and Ports

By Ashley Yeager

U.S. goalkeeper Hope Solo deflects a penalty kick. Credit: AP

Soccer penalty kicks, ‘Chicken’ and other games may thwart terrorist attacks, drug smugglers and even freeloaders trying to board trains without tickets.

It’s not so much the intensity and adrenaline of the games that lead to better security, but the logic the players use, says Vincent Conitzer, a professor of computer science and economics at Duke.

This logic is called game theory and now scientists are using it to compute solutions for security issues, Conitzer explained at a July 11 talk with undergraduates completing summer research projects on campus.

During the talk, Conitzer gave a brief overview of game theory using real-world examples, such as penalty kicks in soccer and a set of drivers playing chicken. In the soccer example, he described a “zero-sum game” between the goalie and the kicker, where no matter the outcome, one player wins and the other loses.

But in the case of chicken, in which two cars drive straight at each other until one of the drivers “chickens out” and diverts course, the stakes of each choice are a bit higher. If both drivers stay straight, they crash. It’s no longer a zero-sum game.

When it comes to preventing security problems, there are more angles of attack, smuggler entry points and ways to board a train than the simple left, right or straight of these game examples.

Cars and buses wait to clear a security checkpoint at LAX. Credit: cardatabase.net

To make predictions about what the bad guys will do in the security scenarios, Conitzer is working with Milind Tambe and his group at USC. The team has designed game theory algorithms to set the schedule of security checkpoints and canine rounds at LAX airport, smuggler-scouting in Boston Harbor and even methods for preventing terrorist attacks in Mumbai.

Tambe “treats the problem of Mumbai personally” since that is his home city, Conitzer said, adding that he is only directly involved in this project with the USC group.

While the talk focused mainly on security applications, Conitzer also thinks that some “surprising new applications have yet to emerge” from the work. The new uses won’t necessarily help win a game of chicken or score a penalty kick.

But they could help scientists understand how to better use incentives to designgames with only good outcomes, such as encouraging smart energy use.

Citation: “Computing Game-Theoretic Solutions and Applications to Security.” Conitzer, V. In Proceedings of the 26th National Conference on Artificial Intelligence (AAAI-12), Toronto, ON, Canada, 2011.

Forgotten Deserts

By Ashley Yeager

A cheetah walks through the African desert. Credit: Martin Harvey, ARKive.org

Deserts get a bad rap. They seem dry and, well, deserted.

“With perceptions such as these, it’s not hard to see why deserts are neglected,” says Andrew Jacobson, coordinator of the Big Cats Initiative intern team at Duke University and the National Geographic Society.

In a June 15 Letter to the Editor in Science, Jacobson and an international list of authors point out the neglect of deserts and argue that the ecosystem has disproportionally little funding or research interest when compared with forests and other habitats that are similar in size and biodiversity.

“Deserts are not barren, empty wildernesses. Many interesting species live there. They are just sparsely distributed,” says Jacobson, who is a research associate in the Nicholas School of the Environment. He studies and works to protect cheetahs, which live and rely on the sandy, barren stretches of land. “If we care about cheetahs, then we should care about deserts,” he says.

In the letter, the authors call on the United Nations Conference on Sustainable Development, Rio+20,  to support the UN Convention to Combat Desertification (UNCCD) and take steps to meet its minimum target of halting land degradation. A statement of support should also include steps to ensure the restoration of desert ecosystems, Jacobson says.

“We want Rio+20 to help ensure that deserts are considered in global priority-setting exercises and consequently receive the attention and funding they deserve,” he says.

In the run-up to the group’s next meeting June 20-22, however, Rio+20 has received heavy criticism for failing to fulfill its initial pledges — reducing poverty, advancing social equity and ensuring environmental protection as population grows. In a June 14 editorial,  Nature cautions Rio+20 that if the meeting is to be “a platform for major new treaties and commitments — the world is awash with both, and to no avail.”

Jacobson says one of the main benefits of getting Rio+20 to support the anti-desertification goals would be to raise consciousness about the issue. Desertification was originally identified as one of three great challenges to sustainable development at the original Rio conference in 1992. “Achieving the UNCCD goal will not be easy and success will depend on many factors, but for momentum to continue, we need high-level support that can only be achieved here,” he says, adding that “you never quite know the power of a global agreement until you travel around a bit.”

Citation:
“Forgotten Biodiversity: The Empty Desert.” S. Durant, et. al. Science. June 15 2012. 336: 1379-1380.

Betting on Bayesball

By Ashley Yeager

Derek Jeter, upper left, and Alex Rodriguez, lower right, anticipate a grounder in a 2007 game . Credit: Wikimedia.

New York Yankees shortstop Derek Jeter has five golden gloves. Alex Rodriquez, a Yankees shortstop and third baseman, has three.

It wasn’t a surprise then when Sayan Mukherjee asked a crowd at Broad Street Café who was a better mid-fielder and Jeter got a few more cheers.

The question, and response, prompted Mukherjee, a statistician who studies machine learning, to launch into a discussion about intuition and statistics in sports, specifically in baseball. Mukherjee spoke on June 12 as part of Periodic Tables: Durham’s Science Café.

He admitted he was a Yankees fan, which elicited some booing. Laughing it off, he then showed a complex statistical equation his colleague, Shane Jensen at the University of Pennsylvania, and others use to calculate a player’s success at fielding ground and fly balls.

On the next slide, Mukherjee showed the results. Rodriquez was clearly on top, and Jeter closer to the bottom. “Jeter doesn’t have as big a range as other players, that’s all I’m suggesting,” Mukherjee said.

Of course, these statistics, called sabermetrics, aren’t new to Jeter and other players. The numbers, based on Bayesian statistics, are exactly what the Oakland A’s baseball team used in 2002 to build a winning team. And, when new numbers came out in 2008, the stats ranked Jeter fairly low as a defensive player. He responded by saying there was a “bug” in the model.

“He has a point. The exact conditions for each play are not the same, so it’s hard to truly compare them,” Mukherjee said. The equation, however, is a way to measure factors of the game, rather than rely on intuition, and statisticians are trying to add more factors to make the model more realistic. The next factor they want to add will account for the different designs of ballparks, Mukherjee said.

He added, though, that these stats don’t really put players’ jobs at jeopardy. Judging by the crowd’s first response, people obviously still rely on intuition when it comes to picking their favorite players. The cold, hard numbers therefore affect how players approach their game – ie Jeter’s post-2007 season focus on a training program to combat the effects of age, Mukherjee said.

The data also affect people betting on the games. “Betting is huge, in any sport,” Mukherjee said, and the numbers, it seems, can affect how people choose to risk their money, but not their team loyalty.

Biomedical Engineering Seniors Share Novel Research

By Nonie Arora

Pratt senior Alex Sun hopes to be able to repair cartilage using stem cells.

Alex Sun at BME Reception

The study Sun has been working on in Dr. Farshid Guilak’s laboratory has found that engineered cartilage constructed from a particular type of stem cell integrate well with host cartilage, but not necessarily in a uniform way.

Sun was one of about thirty biomedical engineering students who presented at the department’s graduation with distinction reception on April 26. Other students have been working on exciting projects in optic imaging of tumors, synthetic biology, and deep brain stimulation, among other topics.

Sun’s project focused on how induced pluripotent stem cells can be used to study cartilage regeneration and repair.

Sun said articular cartilage has limited healing potential and contributes to progressively degenerative diseases like osteoarthritis. The best treatments now require major surgery and total joint replacement. But spontaneous cartilage healing does happen in some animals, like fetal lambs and infantile rats. Better understanding these mechanisms for spontaneous repair could allow for their eventual integration into therapy.

Students Converse at BME Graduation with Distinction Reception

Like many of the seniors graduating from BME with distinction, Sun’s research career has just begun. After graduation, he will be headed to the Netherlands to work on a tissue engineering project sponsored by the Whitaker International Fellowship.