Following the people and events that make up the research community at Duke

Students exploring the Innovation Co-Lab

Category: Students Page 32 of 42

Joining the team: Anika Radiya-Dixit

By Anika Radiya-Dixit

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Hello! My name is Anika Radiya-Dixit, and I am currently a sophomore in the Pratt School of Engineering, pursuing a double major in Electrical Engineering and Computer Science.

I have been interested in science and technology since a young age. My love for science and its integration with constantly changing electronic devices has propelled me to seek a deeper understanding of technology — both in theory and practical applications. I am most passionate about mobile development and entrepreneurship, and enjoy learning about advancements in Big Data and Internet of Things (IoT).

Throughout my high school years, I worked on several projects at various research laboratories in Stanford University, including understanding the advantages of adipose-derived stem cells for diabetic patients in a biomedical lab, as well as re-designing the Foldscope — a paper microscope to diagnose diseases — using concepts from mechanical engineering. Most recently, I worked for a startup project in the Silicon Valley on front-end technologies with Adobe’s Creative Cloud.

My passion for science and technology didn’t remain in reality — they spread to the world of science fiction and literature. I love reading, especially novels by A. Clarke, I. Asimov, R. Bradbury, J.K. Rowling, that pull the reader into a fictional world concocted so beautifully that sometimes I want to remain in those worlds forever. I also love creating such worlds of my own, and I enjoy writing poems, short stories, and novels in my free time.

My other hobbies include playing piano, composing songs, drawing, and tennis, and I look forward to being part of the Duke Research Blog!

Duke Undergraduate Research Society. Hit them up.

By Lyndsey Garcia

I have a confession: I have never personally been interested in performing research. I love to read, listen, and talk about research and latest developments, but never saw myself micropipetting or crunching raw data in the lab. But after attending the Duke Undergraduate Research Society (DURS) Kickoff, they got me to sign up for their listserve!

DURS Executive Board: (from left to right) Joseph Kleinhenz, Syed Adil, Lillian Kang, Dr. Huntington Willard, Sammie Truong, John Bentley

DURS Executive Board: (from left to right) Joseph Kleinhenz, Syed Adil, Lillian Kang, Dr. Huntington Willard, Sammie Truong, John Bentley

The kickoff highlighted DURS’s leading man, Dr. Huntington Willard. He was a biology pre-med undergraduate at Harvard for 3 years until he was introduced to genome research, which quickly became his life’s passion.

In 2002, Willard launched the Institute for Genome Sciences and Policy at Duke, which grew to more than 100 faculty and 300 staff members. The institute unfortunately met its end this past June, but Willard continues his love and passion for genome research here at Duke, and with Duke undergraduate students.

Before creating IGSP, Willard had only interacted with medical and graduate students during his research. But at Duke he had his first opportunity to engage with  undergrads.

“The best thing at Duke is the undergrads and I wanted to take advantage of the best thing at Duke,” he says.

Willard explains his love for research by explaining the inherent differences between all Duke students and those Duke students who perform research. All Duke students love to learn and are interested in what they are learning, but Duke students who research are questioners. He says they want to know more than what is given in the textbook. They constantly go between B and C on the test because there could be valid reasons for both, but we just don’t know why yet. They aren’t afraid to delve into uncharted territories where there is no safety net of certainty.

Willard says many of these young researchers seem to follow his own motto: “This is so cool. I want to know how it works.”

Willard’s talk already had me inspired, but then I got to hear from the executive board of DURS. Each member explained the research they are involved with on campus and how they got there. They explained how they sent tons of emails to professors and received no responses and gave anecdotes about switching labs because it wasn’t what they wanted.

They also expanded on what DURS offers to undergraduates. The program connects professors and undergraduates for potential research positions, sets up workshops to help make networking contacts, pairs young undergrads with experienced undergrads to mentor and give advice, and helps one realize that no one came out of the womb with lab experience, so don’t be discouraged by not having any at first.

“This is exactly why I came to Duke. It’s a great university with amazing research opportunities and now I can’t wait to get started.” – Freshman Jaclyn Onufrey.

So my takeaway from Duke Undergraduate Research Society was:

1)      Are you interested in questioning the unknown?

2)      Do you want to be part of discovering something new?

3)      Don’t know where to start?

If any of those aspects apply to you, it’s definitely worth hitting up DURS!

An Intersection of Math and Medicine: Modeling Cancerous Tumor Kinetics

Anne Talkington with the MAMS function

Anne Talkington with the MAMS function

By Olivia Zhu

Anne Talkington, an undergraduate Mathematics student under the auspices of Richard Durrett, attempts to gain a quantitative grasp on cancer through mathematical modeling. Historically, tumor growth has only been measured in vitro (in a laboratory setting); however, Talkington looks at clinical data from MRIs and mammograms to study how tumors grow in vivo (in the human body).

Talkington is primarily interested in how fast tumors grow and if growth is limited. To analyze these trends, Talkington extracted two time-point measurements of tumor size — one at diagnosis and one immediately before treatment — and compared their change to a variety of mathematical functions. She studied unlimited functions, including the exponential, the power law, and the 2/3 power law, which represents growth limited by surface area, as well as limited functions, including the generalized logistic, which has an upper growth limit, and the Gompertz. Her favorite function is an unlimited function that she created called the Modified Alternating Maclaurin Series, or MAMS, which she originally intended to model microbial growth.

Talkington also examined various types of cancer: breast cancer, liver cancer, tumors of the nerve that connect the ear to the brain, and meningioma, or tumors of the membranes that surround the brain and spinal cord. She expected growth rates among clinical groups to be constant, but she did not generalize between the groups due to demographic bias and other confounding factors.

Ultimately, Talkington found that breast cancer and liver cancer grew exponentially, while tumors of the meninges or vestibulocochlear nerve grew according to the 2/3 power law. Talkington’s work in model-fitting cancer growth will facilitate the administration of effective treatment, which is often growth-stage dependent.

In the Woods, Stalking Destroying Angels

CAPTION _ WHO IS STUDENT?

Duke student Jordan Forte peers at a Pluteus mushroom growing on a piece of rotten wood.

Story and photos by Robin A. Smith

The dozen or so undergraduate students fanning out in Duke Forest are new to mushroom hunting. The class turns over rotting logs and fallen branches and stirs the leaf litter, on the lookout for signs of fungi. Their guide is Duke professor and mushroom expert Rytas Vilgalys. Like many of the researchers in Duke’s twelve-lab mycology group, he often studies pathogenic fungi known to make people sick, but on this muggy September afternoon Vilgalys is more interested in collecting mushrooms simply for the sake of enjoying them. He plucks a tiny flamingo-pink red chanterelle from the forest floor and gives it a sniff. “They almost smell like apricots,” he said. “You can sprinkle these over your salad.”

CAPTION?

One of the mushrooms the students found was this white coral mushroom growing in leaf litter.

An unusually wet August  makes this a good time for mushrooms and their ilk. Student Jasmine Nee picks up a rotten log studded with what looks like tiny pink bubble gum balls — the fruiting bodies of a slime mold called Lycogala epidendrum. They ooze pinkish goo when popped. “They look like pimples,” she said. Vilgalys has been taking students like Jasmine into the forests of central North Carolina for nearly 30 years as part of his introductory mycology class. Their mission: to collect, photograph and identify one or two new fungi every week. “Think of your photos as the 2014 mushroom calendar for Duke Forest,” he said to the students as they headed down the trail and into the woods. “Don’t let me down.”

CAPTION?

Edible red chanterelles get their color from a natural pigment also found in brightly colored crustaceans and fish.

Today the group is also accompanied by Taylor Lockwood, a world-renowned mushroom photographer whose latest project is a movie about his worldwide quest to find and photograph elusive mushrooms that glow in the dark. Lockwood doesn’t have his tripod or reflectors or other gear with him today. Armed with nothing more than cell phone cameras and collecting baskets, he and the students disappear into the loblolly pines and sweetgum trees in ones and twos, and reappear carrying fistfuls of fungi.

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Mushroom photographer Taylor Lockwood shows off some of the mushrooms found in North Carolina forests.

Lockwood passes around a white specimen with a long stalk and gills. It’s a deadly poisonous mushroom called Amanita, also known as the destroying angel. “You can touch it. Just don’t eat it,” Lockwood said. “Destroying angel is such a great name,” Vilgalys said. “It’s like a bike gang.” They find pale-green Russula mushrooms, white coral mushrooms, red chanterelles, pink slime molds and yellow brain fungus, or witches’ butter. There are also waxcaps, jelly babies, puffballs, hedgehog mushrooms, kidney-shaped soft slipper mushrooms, even a creamy yellow mushroom that appears to have a belly button. “That’s called Gerronema strombodes,” Vilgalys said. “They break down wood.” One student points to something at the base of a pine tree that looks like a dried cow patty. It’s a velvet-top fungus, or Phaeolus schweinitzii – known as a source of natural brown pigments often used for dying wool. “We’ve probably got about 20 or 30 species,” Vilgalys said, looking at their assembled mushrooms laid out on a picnic table. Dressed in a green Lithuania t-shirt, he glances down at his cell phone for an update on the United States versus Lithuania game in the Basketball World Cup when he spots something that looks like a crusty dark brown Q-tip poking up through the leaf litter. It’s a type of mushroom known as earth tongues. “Who wants to see something really cool?” he calls to the group.

Students in bio XXXXX are new to mycology, and hope to find  at least two new fungi every week this term.

Students in bio 540 are new to mycology, and hope to find at least two new fungi every week this term.

Joining the Team: Duncan Dodson

duncandodsonHello world! My name is Duncan Dodson. I am a senior from Tulsa, Oklahoma, pursuing a BS in Environmental Science with a focus on Energy and Sustainability. Though my interests and academic pursuits at Duke have shifted over the course of my undergraduate career (I spent over half of it pursuing a mechanical engineering degree), a constant passion has been conservation of the environment. From age six I was involved in the Boy Scouts of America, received my Eagle Scout Award at sixteen, and have been an avid backpacker for five years. I recently co-directed Duke’s experiential education and backpacking based pre-orientation trip, Project WILD, and have been involved with various outdoor and environmental organizations the past three years.

Two things draw me towards exploring environmental issues: the impetus to think selflessly – environmental justice – and the necessity to approach problems on a larger scale – global climate change. Duke and my selective living group Ubuntu have challenged me to explore how we interact with the world around us in both wonderful and destructive ways.

My other budding passion at Duke is education. Challenging knowledge and ideas by informing and listening is a key part of learning. Transitioning from a more homogeneous community in Oklahoma to the vibrant and varied Triangle Area has framed my education in this respect. This is why I applied to write for the Duke Research Blog. Informing others of energy and sustainability research at Duke excites me; having an open forum where exposure to contrary opinions is expected impassions me.

Hopefully my exploration is as intriguing for readers as it is for me!

Joining the Team: Lyndsey Garcia

Hi! My name is Lyndsey Garcia and I’m proud to call myself a Duke student!

I’m a sophomore in the Pratt School of Engineering and I’m still attempting the infamous biomedical engineering, pre-med route. I was born on the naval base in Whidbey Island, Washington but have spent the last ten years in hot, hot Dallas, TX.

Lyndsey Garcia

Lyndsey Garcia

I love to water ski, snowboard, workout, play sports, sleep, eat carbohydrates, and binge watch Netflix shows. I was a big volleyball player in high school and play for the club volleyball team on campus. I used to play positions that were designated for taller girls, but my teammates quickly outgrew me and was sent to the back row. Yet, I found a way to embrace my short stature and love playing defense. Along with volleyball, I work as a lifeguard at the Duke Aquatic pools and peer tutor in organic chemistry.

Some families like to play board games. Some families like to go on exotic vacations. My family likes to listen to podcasts. I listen to Morning Edition when I ride on the bus and to Planet Money when I lift weights. My love for podcasts has helped expand my love for learning. I have learned about current events in Israel, along with different points of view on health care, and new advancements in cancer research. Having already a passion for math and science and an excitement for learning about the newest developments, it was a natural progression that I would seek to combine these interests to join a research blog. The opportunity to report on all the fascinating developments occurring at leading research institution is one of the greatest things I can imagine!

I love Duke and all it has to offer. While getting a first class education, you can cheer for a top ten basketball team. After doing research in the lab, you can toss of Frisbee with your friends in the gardens. Now I can attend interesting lectures and interview my peers on their intriguing research and develop my love of reporting it to all our readers!

Summer Restoration in a Bolivian Winter

By Olivia Zhu2014-06-19 10.45.15

My biggest accomplishment this summer was being able to call the mountains of Bolivia home. Far away from the lecture halls of Duke, I encountered a profound, alternative education that included everything from learning traditional dances to working in a rural hospital laboratory to raising pigs.

Of course, living in Bolivia for two months had its challenges, like a diet in which potatoes were considered vegetables, repeated food poisoning from chicha, the local alcoholic drink consisting of fermented corn, lack of a consistent water source, many near-car accidents, and most of all a deep-seated machismo, but I feel that these were all almost inextricable aspects of a culture that left such a positive impression upon me.

El Hospital Pietro Gamba in Anzaldo, Bolivia

El Hospital Pietro Gamba in Anzaldo served over 69 rural communities in Bolivia

Of course, the inextricability of such factors posed a problem for me as an intern at El Hospital Pietro Gamba encouraging sustainable development to promote public health. Although 80% of children had head lice, a vast majority contracted repeated gastrointestinal bacterial infections, and countless had scabies, the community seemed to get along contentedly. Regardless, with support from the Foundation for Sustainable Development and DukeEngage, my sponsor organizations, I leveraged the relatively new running water system, implemented only 25 years ago, to set in motion a comprehensive lice campaign, to obtain government funding of soap in public restrooms for at least two years, and to create preventative medicine informational materials.

The majority of my education, though, occurred outside the scope of my project. Most importantly, I’ve learned to openly embrace different forms of learning, like relaxation or soccer, that energize me to wholeheartedly pursue my rigorous biophysics career, which I am so fortunate to have at one of the best universities in the world.

The idea of the Aymara New Year illustrates my mentality poignantly: on the first day of the Aymara New Year, traditional Bolivians wish for health, prosperity, and happiness, just as we do in the United States. However, they have a deeper connection with Pachamama, or Mother Nature: on New Year’s Day, they wake up early in the morning to stand on the ground barefoot, awaiting the first rays of the sun. They believe that watching these rays rise above the horizon and light the earth will bring them energy for the entire year. In this, the Aymara New Year represents both personal aspiration and attenuation with the environment.

Similarly, I now aim to maintain a balance between self and surroundings: I hope to be more attuned to the world around me rather than single-mindedly submersing myself in quantum physics, as I believe that varied experiences will infuse me with energy in whatever I pursue. Now, back at Duke for the start of my junior year, I’m excited to begin blogging again and to continue my adventures and education here on campus.

The Aymara sunrise on June 21, 2014.

The Aymara sunrise on June 21, 2014.

Can Research Help Students Avoid Bad Decisions?

By Kelly Rae Chi

Of all the freshman arriving at Duke next week — coming from far and wide to take challenging courses, navigate new living arrangements, make and break friendships  — who will thrive?

What is it about a person that gives him or her the ability to cope with the stress of college better than somebody else?

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Duke researchers are examining the student experience to better understand how and when to prevent substance abuse problems.

That’s what a small crowd of basic researchers and clinicians wondered aloud this week during a Grand Rounds mini-retreat introducing Duke’s new Center On Addiction and Behavior Change (CABC).

In particular, the CABC and affiliates are interested in the mental health issues students bring to campus, what happens when they get here, and what can be done at the institutional level to steer them toward healthful choices.

Last year, trustees of The Duke Endowment approved a $3.4 million, four-year grant to help Duke and three other schools toward this goal.  The CABC’s charge is to study prevention, early intervention and treatment of addiction with an eye toward public policy development and community outreach at Duke.

The center’s co-director Timothy Strauman, a professor of psychology and neuroscience, said 30-40% of students enter college having been diagnosed with a mental health issue. Many attack life on campus with a “work hard, play hard” attitude, to their possible detriment, he added.

The question is whether the university can change the student experience to prevent maladaptive behaviors, like binge drinking, that have become all too common on college campuses.  Researchers attending the mini-retreat offered a range of suggestions for helping students thrive, from changing or eliminating fraternities, to incorporating resilience themes into student orientation activities, to pairing students with mentors.

“The goals of CABC are not just about research and patient care, it’s also about re-engineering how the university works,” Strauman said. “If we can do that, we will have been a success.”

More broadly, the CABC, administered by the Duke Institute for Brain Sciences, aims to better understand addiction and behavior disorders through basic and translational research and to convert that knowledge into prevention, early intervention and treatment. With CABC, Duke is poised to improve the health of the community, said the center’s co-director Edward Levin, a Duke professor of psychiatry and behavioral sciences.

The student resiliency project is just one way forward: The center also hopes to integrate services with employee health, and participate in other forms of local outreach.

To accomplish these goals, researchers from a range of research areas in addiction and behavior are now meeting to brainstorm and share resources. At the mini-retreat, for example, John Looney, M.D., a physician in the department of psychiatry and behavioral sciences, shared his expertise as director of Duke’s Consortium for the Study of the American College Student. He also invited the CABC and other researchers to access the program’s survey database about college students (largest of its kind in the world), which includes data on substance abuse.

Math junior flips for 'bit flips'

By Ashley Mooney

Paul Ziquan Yang is using mathematical techniques to eliminate errors in computer hardware.

Over the summer, the rising junior math major worked with Robert Calderbank, Charles S. Sydnor professor of computer science, as part of the PRUV Fellowship program, a six-week mentorship sponsored by the Department of Mathematics. Yang now plans to continue to work with Calderbank in the fall and may turn the project into a senior thesis.

Paul Z. Yang's summer fellowship in math wasn't all work and no play.

Paul Z. Yang’s summer fellowship in math wasn’t all work and no play.

“Professor Calderbank has been a great source of encouragement and inspiration,” Yang said. “I used to be an engineering major at Pratt, and he was also the one who helped me make my mind to transfer to Trinity and focus on math because that suits me better. I have learned much more from him than just math.”

Yang, from Beijing, China, is studying coding theory, and focusing on how to repair incorrectly stored data. In a computer’s hardware, all information is stored in the form of bits—binary values of zero or one.

Calderbank - crop

Robert Calderbank, director of the Information Initiative at Duke

Within computers, something called a bit flip occasionally occurs where a value of one is replaced with zero or vice versa. In small amounts, these errors are harmless, but when they accumulate they can actually prevent machines from running correctly.

“Our aim is to add redundant information to a fixed list of binary bits so that we can detect the error and possibly correct it,” Yang said. “It’s sort of like cryptography but the aim is different.”

Cryptography is the study and use of mathematical techniques to secure communications and data in the presence of third parties. While cryptography is used to enforce the security of information, Yang employs similar mathematical methods to fix binary coding errors.

Yang noted that he is very excited about his research. “My favorite part is to see the interaction of various branches of math, and how research can connect these branches, even if they seem unrelated at first.”

His classes have provided him with both a theoretical and applied background for his research. His coursework has also trained him in the ways of thinking necessary to develop research questions.

Outside of his classes and research, Yang enjoys spending time with his friends and reading. He said he has also started taking tennis lessons for the first time, and is enjoying the sport more than he expected.

Yang said his long-term plan is eventually to become a professor. After graduation, he is planning on getting a Ph.D. in math, but is still unsure of what he would like to focus on in the field

“The research done at an undergraduate level doesn’t necessarily determine your subject at a graduate level,” Yang said. “I’ll see what interests me more over the next two years of courses.”

Duke students present Alzheimer's research at Montana conference

By Sonal Gagrani

The Federation of American Societies for Experimental Biology (FASEB) brought together neuroimmunologists from all over the world to Big Sky, Montana in July to discuss their current and upcoming research on mechanisms and therapeutics in neuroimmunology.

They covered a plethora of topics in the field from multiple sclerosis, a neurodegenerative brain disorder, to neuroprotection by microglia, the resident immune cells of the brain, to the effects that intestinal imbalances can have on the brain via the blood brain barrier.

My primary focus at the meeting was to expand my knowledge on Alzheimer’s disease (AD), a dementia-causing neurodegenerative disease of the central nervous system that I am currently researching.

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Lauren Kane with her poster at the FASEB conference

We were fortunate to have Lauren Kane, a rising senior in Dr. Carol Colton’s lab at Duke and the only undergraduate student with a poster at the conference, be able to present her work on her Alzheimer’s mouse model.

It is known as a CVN-AD model and has many pathologies found in AD such as β-amyloid plaque formation, neuron loss, tau protein defects, and behavioral deficits. Lauren is studying the changes in myelin, the primary make-up of white matter in the brain. Myelin wraps around axons in order to allow faster communication between neurons. She has found that there is some breakdown in myelin in the CVN-AD model, and this could lead us to find treatments for AD that promote remyelination in the brain.

Matthew Kan, an MD/PhD student in Dr. Michael Gunn’s lab at Duke, also presented his work on Alzheimer’s at the conference. He showed in the CVN-AD mouse model that a possible mechanism of neuronal death may be decreased arginine, an essential amino acid in the brain. Microglia produce arginase-1, an enzyme that breaks down arginine, and Matthew found that blocking arginase-1 activity reversed some neurodegeneration found in the CVN-AD mice. This arginine depletion pathway is known to suppress the brain’s immune system rather than cause inflammation, which many people thought was the mechanism for AD pathology in the past. These results may shift some focus to arginine in looking for AD treatments.

The conference strived to integrate and improve neuroimmunology research by providing a venue for creating connections with the experts in the field. There are many therapeutics for brain disorders in progress that key in on the importance of the brain’s immune system in regulating pathology.

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