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Former BNL Research Associate Nanditha Dissanayake, Matthew Eisaman and Stony Brook Ph.D. candidates Yutong Pang and Ahsan Ashraf. Dissanayake is now a senior scientist at Voxtel. Photo from BNL

If he succeeds, she may see the results of his efforts in her work. As fascinated as she is by her studies in the Antarctic, Heather Lynch knows the stakes are high for her husband Matthew Eisaman’s work.

“These days, ecologists like myself are often just carefully documenting environmental decline, and predicting how quickly or slowly a species will go extinct,” Lynch offered in response to emailed questions. “The work that [Eisaman] does will actually solve the problem.”

Indeed, as a physicist in the Sustainable Energy Technologies Department at BNL and an assistant professor in the Department of Electrical and Computer Engineering at Stony Brook University, Eisaman is focused on improving the efficiency of reusable energy sources, particularly solar cells.

It is through this effort that Eisaman made a compelling discovery recently that may have implications outside the world of reusable energy.

Eisaman worked with a team of scientists at BNL and the Colleges of Nanoscale Science and Engineering at SUNY Polytechnic on a process related to graphene, which is a two-dimensional arrangement of carbon atoms that is one atom thick.

Eisaman was working on a process called doping in which scientists add or take away electrons. Doping is one way to control how graphene behaves at junctions with semiconductors. Eisaman set up an experiment to explore a way to make n-doping, which adds electrons to graphene, more efficient.

The team at SUNY Polytechnic built a product on top of a sodium lime substrate, which is an ingredient in household glass and windows. Eisaman layered graphene on top of that. He had planned to add other chemicals to dope the graphene.

“Before we doped it, we took a baseline measurement,” Eisaman said. “It looked like it was strongly n-doped, which we didn’t expect.” He followed this up with a series of other experiments, using the facilities at BNL including the Center for Functional Nanomaterials, at SUNY Poly and in his lab. “The whole study was really a team effort requiring many different areas of expertise.”

Matthew Eisaman with his wife Heather Lynch and their 6-year old daughter Avery. Photo by Matthew Eisaman
Matthew Eisaman with his wife Heather Lynch and their 6-year old daughter Avery. Photo by Matthew Eisaman

Eisaman believes this discovery was promising for solar cells and other possible technological advances. He plans to explore the fundamentals of the doping mechanism. He would like to understand how the chemical environment of the sodium affects the doping strength. He is also studying how the doping and other electronic properties of the graphene vary with the number of graphene layers.

Eisaman said one challenge to making this doping process work is that most semiconductor properties would change, mostly for the worse, if scientists tried to diffuse sodium through it. A possible solution is to deposit a material on top of the graphene that has a sufficiently high surface density of sodium. While this material would donate electrons to the graphene, it would not diffuse into the semiconductor as long as the temperatures of the deposition process were low enough, Eisaman suggested. He is currently working on this.

Since the paper came out in Scientific Reports in February, Eisaman said he has had inquiries from scientists and from a company that might want to use their discovery. He is “actively looking for funding and partnerships to help push this forward,” he said.

Eisaman has three Ph.D. candidates in his lab and he usually adds two to four undergraduate researchers in the summer. While this group will continue to develop technology that will seek ways to find applications of graphene doping techniques, Eisaman will continue with the bread and butter work in his lab: improving the efficiency of reusable energy alternatives.

In another set of experiments, Eisaman collaborated with Charles Black, a scientist and group leader at the Center for Functional Nanomaterials. Black and Eisaman worked on how to use the same anti-reflective properties in moth eyes to reduce the amount of light that escapes from a solar cell through reflections.

Black constructed structures that mimicked these properties. The structure worked even better than expected.

“Based on our limited knowledge of optics, which is [Eisaman’s] expertise, we couldn’t understand why they seemed to be doing better than we thought they should,” Black said. Eisaman’s complementary ability to model the optical properties of the material on the computer allowed them to see a “subtlety that escaped us. In the end, he figured out what was going on.” Black and Eisaman are continuing to work together to create a better structure.

Eisaman and Lynch, an assistant professor in the Department  of Ecology and Evolution at Stony Brook, have a 6-year old daughter Avery. They live in Port Jefferson, where they have had solar panels on their house for over a year.

The couple, who met when they were undergraduates at Princeton, discuss their work “constantly,” Lynch noted. “Sometimes, we sit and brainstorm how to solve the world’s energy problems, by which I mean that I throw out crazy ideas and [Eisaman] patiently explains why they wouldn’t work or why they don’t scale well.”

Eisaman, who grew up in Pittsburgh, said he appreciates being close to the water, where he and Lynch have enjoyed kayaking since they moved to Long Island in 2011. Eisaman and Lynch are recreational runners and try to run two marathons each year: the Pineland Farms Trail Race in Maine and the Hamptons Marathon.

As for his work, Eisaman said he feels a sense of urgency. “One of the most pressing problems we’re facing is to meet our energy goals in the next 10 to 20 years.”

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Dmitri Kharzeev stands with Qiang Li, a physicist and head of the Advanced Energy Materials Group at BNL, Genda Gu, a senior physicist from the Condensed Matter Physics & Materials Sciences Department and Tonica Valla, a BNL physicist. Photo from BNL

More than a decade ago, Dmitri Kharzeev came up with an idea he thought he should find in nature. Many such concepts come and go, with some, like the Higgs boson particle, taking over 50 years to discover.

After working with numerous collaborators over the years, the professor of physics and astronomy at Stony Brook University and a senior scientist at Brookhaven National Laboratory found proof.

“This was absolutely amazing,” said Kharzeev. “You think an idea in your head, but whether or not it’s realized in the real world is not at all clear. When you find it in the laboratory on a table top experiment, it’s pretty exciting.”

The discovery triggered a champagne party in Kharzeev’s Port Jefferson home, which included collaborators such as Qiang Li, a physicist and head of the Advanced Energy Materials Group at Brookhaven, and Tonica Valla, a physicist at BNL, among others. “There was a feeling that something new is about to begin,” Kharzeev said.

Kharzeev’s idea was that an imbalance in particles moving with different projections of spin on momentum generates an electric current that flows with resistance. That resistance drops in a magnetic field that the scientists hope can reach zero, which would give their material superconducting properties.

A particle’s projection of spin on momentum is its chirality. The magnetic field aligns the spins of the positive and negative particles in opposite directions. When the scientists applied an electric field, the positive particles moved with it and the negative ones moved against it. This allows the particles to move in a direction consistent with their spin, which creates an imbalance in chirality.

The chiral magnetic effect can enable ultra-fast magnetic switches, sensors, quantum electricity generators and conventional and quantum computers.

Kharzeev had expected this kind of separation for particles at the Relativistic Heavy Ion Collider at BNL, where he figured he might observe the separation for quarks in the quark-gluon plasma.

Instead, he and his colleagues, including co-author Li, discovered this phenomenon with zirconium pentatelluride, which is in a relatively new class of materials called Dirac semimetals, which were created in 2014. Their paper was published in Nature Physics earlier this year.

Dmitri Kharzeev at the control center of the Relativistic Heavy Ion Collider at BNL. Photo from BNL
Dmitri Kharzeev at the control center of the Relativistic Heavy Ion Collider at BNL. Photo from BNL

The particles had to be nearly massless to allow them to move through any obstacles in their path. Particles that collided with something else and changed their direction or chirality would create resistance, which would reduce conductivity.

Genda Gu, who is in the Condensed Matter Physics & Materials Sciences Department at BNL, grew the zirconium pentatelluride crystals in his laboratory. Gu “is one of the best crystal growers in the world and he has managed to grow the cleanest crystals of zirconium pentatelluride currently available,” said Kharzeev.

Gu said he collaborates regularly with Li. This, however, was the first time he worked with Kharzeev. He called the work “fruitful and productive” and said the crystals had “generated a number of exciting scientific results.”

The materials they worked with have a wide range of potential applications. The semimetals strongly interact with light in the terahertz frequency range, which is a useful and unique property, Kharzeev suggested. Terahertz electromagnetic radiation, which is called T-rays, can be used for nondamaging medical imaging, including the diagnosis of cancer and high-speed wireless communications.

To be sure, there are limitations to zirconium pentatelluride. For starters, it only displays this chiral magnetic effect at temperatures below 100 degrees Kelvin, or minus 280 degrees Fahrenheit, which is on par with the best high-temperature semiconductors, but still well below room temperature. Its chirality is also only approximately conserved, so the resistance does not drop all the way to zero.

Another hurdle is that scientists have to improve the technique for growing thin films of this material. While it is possible, it will take considerable research and development, Kharzeev said. He hopes to find a material that will exhibit chiral magnet effects at room temperature.

Kharzeev has received interest from companies and other researchers but said “we have a lot of work to do before we can create practical devices” based on this effect. He hopes scientists will create such products within the next five to ten years.

There are numerous potential uses for zirconium pentatelluride and other similar materials, including in space, where temperatures remain low enough for these quasi-particles.

“You could envision this on space stations to generate electricity from sunlight,” Kharzeev said. When he saw the movie “The Martian,” Kharzeev said he thought about how thermoelectrics could power a station on the Red Planet.

“If we managed to increase the temperature at which the chiral magnetic effect is present just a little, by about 70 degrees Fahrenheit, our thermoelectric would be even more efficient,” he said.

Kharzeev, who grew up in Russia and moved to Long Island in 1997, appreciates the beauty and comforts of the area.

“The combination of Stony Brook, BNL and Cold Spring Harbor Lab makes Long Island one of the best places in the world to do science,” he said. He also loves the beaches and the ocean and plays tennis at the Port Jefferson Country Club.

As for his collaborations, Kharzeev is excited by the work ahead with a material he didn’t envision demonstrating these superconducting properties when he came up with this concept in 2004.

When he learned of the work Li was doing with zirconium pentatelluride, Kharzeev “rushed” into his lab. “It appeared that even though he and his group were not thinking about the chiral magnetic effect at the time, they had already set up an experiment that was perfect for this purpose,” Kharzeev said. They “even had a preliminary result that literally made my heart jump.”

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Jurek Sadowski at Brookhaven National Laboratory. Photo from BNL

When a successful chef mixes ingredients, he changes the proportions of nutmeg to cinnamon or of parsley to oregano. He’s much more likely to focus on how the final product affects the flavor than he is the way the ingredients mix.

That’s not the case for Jurek (pronounced Yoo rek) Sadowski. Although he’s not a chef, the staff scientist at Brookhaven National Laboratory’s Center for Functional Nanomaterials (CFN) would like to understand how some of the smallest pieces of organic metal complexes come together when they go through a process called self-assembly.

“I’m not only interested in obtaining the recipe for making these [products], but I’m also interested in understanding how and why things happen in these conditions on a more basic level,” Sadowski said.

Working with the low-energy electron microscope, Sadowski is a part of a team at the CFN that is involved in seeing and interpreting changes that occur on an atomic scale.

Sadowski has collaborated on environmental products that can remove greenhouse gases like carbon dioxide from the air. This research helps understand how these self-assembled organic compounds develop pores of different sizes that can trap greenhouse gases.

The size of the pores works like a fishing net designed to catch the equivalent of Goldilocks gases from the air. Some gases pass right through them, while others bounce off without getting trapped. Then there are those, like carbon dioxide, that fit perfectly in the small spaces between the organic pieces.

In putting these products together, Sadowski asks what he needs to do to make the process more efficient and more selective.

The CFN is a user facility, which means that scientists around the world can benefit from the high level of technical expertise Sadowski possesses. He has worked with scientists from Columbia, Yale, Oak Ridge National Laboratory and SUNY facilities as well as visitors from the United Kingdom, Denmark, Germany, Italy, Croatia and Japan.

Sadowski with his wife Adrianna Sadowska in Central Park recently. Photo from Jurek Sadowski
Sadowski with his wife Adrianna Sadowska in Central Park recently. Photo from Jurek Sadowski

Researchers who have worked with Sadowski suggested that his scientific and technical knowledge make him a particularly effective collaborator.

The low-energy electron microscope is a “very complicated instrument,” said Richard Osgood, the Higgins professor emeritus of electrical engineering and applied physics at Columbia University, who has collaborated for years with Sadowski. “You don’t just go in and turn a dial: it’s much more complicated than that. You have to tune things up.”

Working with Sadowski greatly lowers the cost of research because he can “do something in a couple of days” that might otherwise take a graduate student or other researcher a half a year or more to figure out,” Osgood said.

Sadowski said some of the products that use self-assembly include wearable electronics, such as solar cells or clothing, or wearable medical devices.

Sadowski divides his time about equally between pursuing his own research and working with others at the CFN.

Sadowski runs his own experiments mostly in a vacuum, where he varies the temperature and the density of the molecules he’s using.

Sadowski is planning to give a talk in March at the American Physical Society meeting in Baltimore about his work.

“It’s important to understand how the molecules self-assemble themselves on the surface,” he said. “We can utilize self-assembly for further advances.”

For about five years, Sadowski has helped plan the creation of a new beamline at the National Synchrotron Light Source II at BNL. That beamline, which will be called the electron spectro-microscopy beamline, will be completed later this year. The beamline will use a microscope that the CFN is contributing, which will help provide structural, chemical and electronic maps of surfaces with a resolution of a few nanometers.

“We will have a much more extended capability for studying chemical reactions as they happen on the surface and the electronic structure of the materials” by combining information of the surface morphology with the electronic structure and chemistry. This, he said, will provide a “comprehensive picture of the surface, or of a catalyst, or of a reaction” as it’s occurring.

One of the first experiments he might do would be to provide a chemical map of the surface of a material. He plans to determine the oxidation state of metals making up the surface.

Sadowski lives on the Upper East Side of Manhattan with his wife Adrianna Sadowska (whose name is slightly different to reflect her gender). The couple met in their native Poland where he was taking a class to brush up on Japanese before moving there after he earned his Ph.D. Sadowska, who is now a wine specialist at an auction house in White Plains, was preparing for a trip to Japan as well. The two expatriates lived in Japan for almost a decade. After getting married in Japan, they came to the United States.

As for his work, Sadowski said new questions regularly inspire him. “Every day, there’s a new challenge,” he said. “I really like to solve problems, one by one.”

The work done at Sadowski’s group and at the CFN can and likely will have numerous benefits, Osgood said.

This work could “form new technology that nobody dreamed about before,” said Osgood, who was an associate director at BNL and was directly involved in the creation of the CFN. “Every time I walk out there, I kick up my heels. It’s such a wonderful facility.”

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Crysten and Ian Blaby. Photo by Kevin Keck

Part 1 of a two-part series.

She is a “creative thinker,” while he is a “fearless experimentalist,” according to UCLA Distinguished Professor Sabeeha Merchant. Brookhaven National Laboratory recently hired the tandem of Crysten and Ian Blaby in the Biology Department.

Crysten and Ian Blaby did their postdoctoral work in Merchant’s lab for about five years. Merchant believes “there is no question that they will make discoveries to advance knowledge.”

The Times Beacon Record Newspapers will profile the scientific studies of the Blabys. This week’s column will highlight the work of Crysten Blaby, and next week’s will profile Ian Blaby.

Crysten Blaby is something of a metal worker, although she doesn’t dig anything out of the earth, wear a hard hat or ship metals by the ton. In fact, the amount of metal in her job is so small that the copper, iron, zinc and manganese she works with in a year wouldn’t fill a teaspoon.

That’s because Blaby (pronounced like “baby” with an extra letter) studies a one-celled algae called Chlamydomonas reinhardtii. This organism survives in a wide range of environments, where the amount of available metals can be precariously low, dangerously high, or can bounce back and forth between extremes.

Blaby, who is an assistant biologist at BNL, would like to know which proteins in these algae, among other species, including bacteria, plants and animals, are involved in maintaining a balance of metals.

“I am focused on the genes and proteins in metal homeostasis,” she said. That means she wants to know what genes are active in different environments.

Understanding the molecular biology of algae can provide clues about where to look for similar genes in more complex members of the plant kingdom. Discovering these processes could help farmers develop techniques that will foster growth for biofuel crops that are cultivated on lands that are less suited for food production.

“With this research, we could find easy, cheap ways to ‘diagnose’ whether crops are deficient in metal nutrients and best know how to remedy it,” she explained. “This research could also be used to help select which crops or breeds would thrive best given the quality of a particular soil.”

While Blaby won’t help produce new biofuel crops, her discoveries about the genes involved in metal homeostasis is part of “foundational science” that will underpin those types of discoveries, said John Shanklin, the head of plant science research at BNL. “Without [Ian and Crysten Blaby] doing this” the scientists who want to produce biofuel crops in inhospitable environments “are stuck.”

Blaby’s work could also help provide information that might translate into therapies for human conditions.

Menkes disease and Wilson’s disease are two inherited disorders of copper metabolism, which are caused by dysfunctional copper transporters, she said.

Blaby recently discovered a copper chaperone that looks similar to a molecule in humans and that’s involved in keeping algae safe from accumulations of copper. She suggested that the chaperone in algae protects the cell from copper by making sure that it is hand delivered between proteins. More research, however, is needed to ensure this model is accurate.

Blaby is studying the biochemical routes these metals take into the cell. The main gatekeepers controlling the movement of metal ions across membranes are likely transporters, she said.

Blaby is scheduled for beamline time at the new National Synchrotron Light Source II facility at BNL this April. The process of getting time on the beamline is extremely competitive, with numerous top-notch scientific projects rejected in part because the facility can’t yet meet the demand for a light source that is 10,000 times more powerful than the original synchrotron.

“People recognize [Crysten and Ian Blaby] are asking cutting-edge questions and they are trying to assist them in every way they can,” Shanklin said. “Everyone wants to be a part of [their] success.” After she moved to BNL, Blaby developed her NSLS-II application with Professor Emeritus Keith Jones, a physicist who she said is involved in experiments at the new synchrotron, and several of his collaborators.

“The goal is to uncover where metals travel in the cell after uptake and before they are loaded into target proteins, and understand which proteins, such as transporters, are involved” in this process, she said.

Blaby is collaborating with Qun Liu, another new hire at BNL, to look at transporter proteins, to understand how many different kinds there are, and “figure out how plants move nutrients around,” Shanklin said.

One of the ways she can solve how genes respond to different environments is by using small RNAs to knock down gene expression.

Ian and Crysten, who met when they worked in a lab in Florida, are residents of Miller Place. When they met, they were “instantly friends,” she said, in part because of their shared interest in science. They each appreciate having someone who “understands the challenges, disappointments and pure joy of discovery that comes with pursuing this career.”

The plant biologists have a two-year old daughter Emily.

As for their work, Crysten Blaby said they collaborate with each other but also concentrate on those areas where they have each developed their individual skills.

“We focus on the pathways for genes that are involved in processes that we have expertise in and where our passion lies,” she said.

This version corrects the department Crysten and Ian Blaby work in at Brookhaven National Laboratory.

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Michael Bell casts a minnow trap at Loberg Lake in Palmer, Alaska. Photo by Peter J. Park

The creation of a freeway in Los Angeles put Michael Bell on the road to his career choice. When Bell was about 12 years old, construction near his home cut through rocks that contained a treasure for him: fossil fish.

“I formed a relationship with the Natural History Museum in LA County and started bringing fossils [to them],” Bell recalled. “I had friends who would do it for a week or two and then they’d had enough. I did it endlessly. In a way, that’s how my career started.”

Michael Bell casts a minnow trap at Loberg Lake in Palmer, Alaska. Photo by Peter J. Park
Michael Bell casts a minnow trap at Loberg Lake in Palmer, Alaska. Photo by Peter J. Park

Indeed, that career led him to Stony Brook University, where he arrived in 1978 and is a professor in the Department of Ecology and Evolution. Bell was co-editor of “The Evolutionary Biology of the Threespine Stickleback” in 1994 with Susan A. Foster.

Recently, the American Association for the Advancement of Science elected Bell as a Ffellow. Bell said he appreciated the “broader recognition of his work.”

Those who have collaborated with him said Bell is a leader and an exceptional scientist.

Bell’s “contribution to the field has been enormous,” explained Windsor Aguirre, a former graduate student who is an assistant professor in the Department of Biological Sciences at DePaul University who still works with Bell. “Many of the most important papers in the field have been made possible or greatly enhanced [by Bell’s efforts],” he said.

From those early days, Bell has focused on the threespine stickleback, a fish that used to be considerably more prevalent at Flax Pond in Old Field and in the Great South Bay.

This particular fish, whose three sharp spines on the top of its body prevent some predators from swallowing it, appeals to scientists for a host of reasons —  from the variation it exhibits within and among populations to its relatively small size and ease of maintaining in a lab.

Bell has focused on establishing the relationship between traits and environmental factors. These fish can live in the sea ­— where they contend with the usual saltwater dilemma, where the concentration of salt is higher than in body fluids — and in freshwater, where salt is lower than in their body fluids.

Like salmon, they breed in brackish water (water that’s in between fresh and salty) and freshwater. The population of fish that evolve in freshwater can continue to survive despite having marine ancestors.

Indeed, the evolution, through mutations, of these fish is so rapid that they defy Charles Darwin. Coming up with the theory of natural selection when he studied the many unique birds in the Galapagos Islands 600 miles off the coast of Ecuador, Darwin believed that evolution occurred on an almost imperceptibly slow time scale.

“Darwin underestimated the potential for rapid evolution,” Bell said. “He believed evolution is slow.” Sticklebacks have traits that evolve at high rates.

Bell has studied stickleback fossils in Nevada and California and modern stickleback in California and Alaska.

He has often studied the armor plates of stickleback, which have a marine and a freshwater version. In the ocean, the freshwater version would theoretically occur only once in about 10,000 young sticklebacks, because it’s a disadvantage to that individual. However, in a different environment, the fish with the freshwater armor plating becomes the natural selection superstar.

In an experiment in Cheney Lake in Anchorage, Alaska, Bell released sea-run stickleback. A year later, none of the fish had the freshwater plates, while fewer than 1 percent had them two years later. Six years after the experiment began, however, one in five fish had these plates.

“When you put the fish in freshwater, it evolves,” he said.

A resident of Stony Brook, Bell chose to live close enough to the university to walk to work. That, he said, was by design because he moved in during the gas crisis in the 1970s and didn’t want to wait in line for gas or struggle to get to work.

Bell and his wife Cynthia Blair travel to farms out east, shop and visit vineyards. Bell enjoys wandering through stores, especially for craft objects, which Blair also likes and makes herself. She designed a pillow of Bell, surrounded by swimming sticklebacks.

After four decades of research, Bell remains as inspired to find fossils and gather evidence about these rapidly evolving and adaptive fish as he was when he was a teenager.

“I won’t ever really retire,” said Bell, although he does expect to cut back so that he can travel with his wife. He appreciates being able to visit the shore of a lake in Alaska and “see what comes up in traps. It’s all still fun — making samples of modern and fossil stickleback, getting results that mean something scientifically and standing in front of a class and explaining biology to them.”

Aguirre, who described Bell as a “great” mentor, suggested that Bell and the stickleback are inextricably intertwined. “The threespine stickleback is truly one of evolutionary biology’s supermodels and [Bell] has played a critical role in bringing the species to the attention of the broader scientific community and the general public.”

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BNL’s Peter Guida with Daniela Trani, a summer school student at the NASA Space Radiation Lab. Photo from BNL

Ferdinand Magellan didn’t have the luxury of sending a machine into the unknown around the world before he took to the seas. Modern humans, however, dispatch satellites, rovers and orbiters into the farthest reaches of the universe. Several months after the New Horizons spacecraft beamed back the first close-up images of Pluto from over three billion miles away, NASA confirmed the presence of water on Mars.

The Mars discovery continues the excitement over the possibility of sending astronauts to the Red Planet as early as the 2030s.

Before astronauts can take a journey between planets that average 140 million miles apart, scientists need to figure out the health effects of prolonged exposure to damaging radiation.

Each year, liaison biologist Peter Guida at the NASA Space Radiation Laboratory (NSRL) at Brookhaven National Laboratory coordinates the visits of over 400 scientists to a facility designed to determine, among other things, what radiation does to the human body and to find possible prevention or treatment for any damage.

Guida is working to “improve our understanding of the effects that space radiation from cosmic rays have on humans,” explained Michael Sivertz, a physicist at the same facility. “He would like to make sure that voyages to Mars do not have to be one-way trips.”

Guida said radiation induces un-repaired and mis-repaired DNA damage. Enough accumulated mutations can cause cancer. Radiation also induces reactive oxygen species and produces secondary damage that is like aging.

The results from these experiments could provide insights that lead to a better understanding of diseases in general and may reveal potential targets for treatment.

This type of research could help those who battle cancer, neurological defects or other health challenges, Guida said.

By observing the molecular changes tissues and cells grown in the lab undergo in model systems as they transition from healthy to cancerous, researchers can look to protect or restore genetic systems that might be especially vulnerable.

If the work done at the NSRL uncovers some of those genetic steps, it could also provide researchers and, down the road, doctors with a way of using those genes as predictors of cancer or can offer guidance in tailoring individualized medical treatment based on the molecular signature of a developing cancer, Guida suggested.

Guida conducts research on neural progenitor cells, which can create other types of cells in the nervous system, such as astrocytes. He also triggers differentiation in these cells and works with mature neurons. He has collaborated with Roger M. Loria, a professor in microbiology and immunology at Virginia Commonwealth University, on a compound that reverses the damage from radiation on the hematological, or blood, system.

The compound can increase red blood cells, hemoglobin and platelet counts even after exposure to some radiation. It also increases monocytes and the number of bone marrow cells. A treatment like this might be like having the equivalent of a fire extinguisher nearby, not only for astronauts but also for those who might be exposed to radiation through accidents like Fukushima or Chernobyl or in the event of a deliberate act.

Loria is conducting tests for Food and Drug Administration approval, Guida said.

If this compound helps astronauts, it might also have applications for other health challenges, although any other uses would require careful testing.

While Guida conducts and collaborates on research, he spends the majority of his time ensuring that the NSRL is meeting NASA’s scientific goals and objectives by supporting the research of investigators who conduct their studies at the site. He and a team of support personnel at NSRL set up the labs and equipment for these visiting scientists. He also schedules time on the beam line that generates ionizing particles.

Guida is “very well respected within the space radiation community, which is why he was chosen to have such responsibility,” said Sivertz, who has known Guida for a decade.

Guida and his wife Susan, a therapist who is in private practice, live in Searingtown.

While Guida recalls making a drawing in crayon after watching Neil Armstrong land on the moon, he didn’t seek out an opportunity at BNL because of a long-standing interest in space. Rather, his scientific interest stemmed from a desire to contribute to cancer research.

When he was 15, his mother Jennie, who was a seamstress, died after a two-year battle with cancer. Guida started out his career at Cold Spring Harbor Laboratory, where he hoped to make at least the “tiniest contribution” to cancer research.

He pursued postdoctoral research at BNL to study the link between mutations, radiation and cancer.

Guida feels as if he’s contributed to cancer research and likes to think his mother is proud of him. “Like a good scientist,” though, he said he’s “never satisfied. Good science creates the need to do more good science. When you find something out, that naturally leads to more questions.”

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Barbara Chapman on the side of a pyramid during her trip to Egypt. Photo from Chapman

If the smartest people in the world gathered in a room, they might struggle to collaborate. An Australian astrophysicist might have a different way of solving problems from the Spanish sociologist. That doesn’t even address language barriers.

Similar principles hold true for the world’s best super computers. While each may have an ability to perform numerous calculations, gather information, and extrapolate from patterns too complicated to discover with a pencil and paper, they can be limited in their ability to work together efficiently.

That’s where a leader in the field of parallel computing comes in. Barbara Chapman, who has been at the University of Houston since 1999, has taught rising stars in the field, written textbooks and enabled the combination of supercomputers to become more than the proverbial sum of their parts.

And, this week, she is bringing her talents to Long Island, where she’s starting the next step in her career as a professor of Applied Math and Statistics, and Computer Science at Stony Brook, as part of the Institute for Advanced Computational Science and as an affiliate at Brookhaven National Laboratory.

Calling Chapman a “pioneer in the world of parallel computing,” Sunita Chandrasekaran, who was a post-doctoral researcher in Chapman’s lab, predicted Chapman would “attract top graduate students from across the globe. Many students would love to do research under Chapman’s supervision.”

Lei Huang, an assistant professor in the computer science department at Prairie View A&M University in Texas, considers Chapman his “mentor,” and said she is “always patient with students,” making her a “valuable asset” to Stony Brook. Huang, who did his Ph.D. and worked as a post doc in Chapman’s lab, added that she proposed and implemented innovative language features to improve performance and productivity of programming on supercomputers.

Chapman, who grew up in New Zealand, said she left the more temperate region of Houston driven, in part, by the intelligence and personality of Robert J. Harrison, Stony Brook’s director for the Institute for Advanced Computational Science. Additionally, Chapman sees opportunities to work with local collaborators.

Chapman works to make it easier for scientists and other users to get computers to solve their problems and gain insights from massive amounts of data. She strives to get high-powered computers to work together efficiently.

Scientists need to give computers a way of telling the cores how to interact and collaborate. Dividing up the work and ensuring that these computers share data are among the challenges of her role.

The new Stony Brook scientist helped develop OpenMP, which can be used to program multicores and is an industry standard used in cell phones, among other things.

President Obama unveiled plans to build an exascale computer, which might be capable of performing a billion billion operations per second. Building this computer will have numerous challenges, including hardware, power, memory, data movement, resilience and programming.

Chandrasekaran, who recently joined the University of Delaware as an assistant professor, said software programming needs to be more intuitive, portable across platforms and adaptable without any compromise in performance. Chapman, she said, is a leader in these fields, bringing together national laboratories, vendors and academia.

As a part of a group of researchers asked to identify opportunities for collaborations between the United States and Egypt, Chapman also journeyed to Egypt. While it was a “wonderful experience,” Chapman said the efforts were put on hold indefinitely after the revolution.

Applications that exploit supercomputers range from astrophysics to the automotive industry to analyzing old texts, to determine if the works of classical scholars were written or translated by the same person, Chapman said.

Chapman and her colleagues work to design features to support the next generation of computers. In the next few years, Chapman expects computers to have more complex memory, while the cores will be more heterogeneous.

At the same time, hardware manufacturers are focused on green computing, enabling the same computing power while using less energy.

Chapman enjoys working in an academic setting, where she can inspire the next generation of computer scientists. She will start teaching at Stony Brook in 2016.

While Chapman’s work centers around helping computers get the most from their collaborations, she also believes the workforce would benefit from attracting, training and supporting people from a broader range of backgrounds, including African-Americans, Hispanics, and women.

“If we had a much more diverse group of people, how would our use of computers change?” she asks. “Would we find other uses of computers?”

Chapman is encouraged that her concern about diversity is a matter numerous people in Washington are discussing. “I chaired a small study on this last year for the Department of Energy,” she said. “There’s a lot of buy-in to the notion that it’s important to change that.”

Chapman said an early experience working with the National Aeronautics and Space Administration ignited her interest in computer science. She worked with people who were exploring what happens when a spacecraft re-enters Earth’s atmosphere. They were designing materials that are better able to withstand the heat and speed of returning to Earth.

“People can use machines for finding out what’s going on in the universe in the big picture,” she said. “That got me hooked.”

This version corrects the title of Sunita Chandrasekaran.

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Professor Allen Tannenbaum. Photo from Stony Brook University

It’s a dangerous enemy that often turns deadly. Worse than its potentially lethal nature, however, cancer has an ability to work around any roadblocks scientists and doctors put in its path, rendering some solutions that bring hope ineffective.

Researchers around the world are eagerly searching for ways to stay one, two or three moves ahead of cancer, anticipating how the many forms of this disease take medicine’s best shot and then go back to the business of jeopardizing human health.

Allen Tannenbaum, a professor of computer science and applied mathematics and statistics at Stony Brook University, has added a field called graph theory to some of the tools he knows well from his work in medical imaging and computer vision.

A normal, healthy cell is like a factory, with genes sending signals through proteins, enzymes and catalysts, moving reactions forward or stopping them, and the genetic machinery indicating when and how hard the parts should work.

Cancer, however, is like a hostile takeover of that factory, producing the factory equivalent of M16s that damage the cell and the individual instead of baby toys, Tannebaum suggested.

By analyzing how proteins or transcription networks interact, Tannenbaum and his colleagues can develop a model for the so-called curvature of interactions.

Looking at the interactions among parts of the genetic factory, Tannenbaum can determine and quantify the parts of the cell that are following cancer commands, rather than doing their original task.

Curvature isn’t so much a bending of a physical space as it is a change in the way the different proteins or transcription factors function in the discrete networks Tannenbaum uses in cancer and biology.

“The parts are not doing their job the same way,” Tannenbaum said. “We can look and see graphically how different things compare.” He and his collaborators recently published their findings in the journal Scientific Reports.

Using mathematical formulas to define a range of interactions, Tannenbaum can determine how quickly a cancer or normal cell can return to its original state after a disturbance. This ability is called its robustness.

The study “brings to light a new way to understand and quantify the ability of cancer cells to adapt and develop resistance,” explained Tryphon T. Georgiou, a professor in the Department of Electrical and Computer Engineering at the University of Minnesota, who has known Tannenbaum for over 30 years and collaborated on this study. “It also provides ways to identify potential targets for
drug development.”

Tannenbaum studied cells from six different tumor types and supplemented the study with networks that contain about 500 cancer-related genes from the Cosmic Cancer Gene Census.

In treatments for cancers, including sarcomas, researchers and doctors sometimes try to pull the plug on cancer’s energy network. This method can slow cancer down, but cancer often resumes its harmful operations.

Using models of cancer on a computer, Tannenbaum and the five graduate students and four postdoctoral fellows can run virtual experiments. He can hand off his results to biologists, who can then run tests. Once those scientists collect data, they can offer information back to Tannenbaum.

“This is a team effort,” said Tannenbaum, who works with scientists at Memorial Sloan Kettering, the University of Texas MD Anderson Cancer Center and Brigham and Women’s Hospital.

Georgiou described Tannenbaum as a “brilliant scholar” and a “mathematician with unparalleled creativity,” who has been a “pioneer in many fields,” including computer vision. Indeed, a computer vision program could assist nurses in the intensive care unit on different shifts assess the level of pain from someone who might not otherwise be able to communicate it.

Georgiou called Tannenbaum’s work on cancer a “mission” and said Tannenbaum is “absolutely determined to use his remarkable skills as a mathematician and as a scientist” to defeat it.

Tannenbaum, who recently took his grandchild to a Mets win at CitiField, said coming to Stony Brook in 2013 was a homecoming, bringing him closer to his native Queens. He cited two famous graduates from Far Rockaway High School: the physicist Richard Feynman, who helped develop the atomic bomb, and Bernie Madoff.

He and his wife Rina, who is a professor in materials science and engineering at Stony Brook, live in Long Island City.

Tannenbaum hopes to continue to build on his work applying math to solving cancer.

“There’s a lot of mathematical play left and then testing the predictions in a biological/medical setting,” he said.

Setauket Harbor file photo by Rachel Shapiro

Setauket Harbor’s closest friend circle just got a lot bigger.

The newly formed Setauket Harbor Task Force has been appointed to the Long Island Sound Study Citizens Advisory Committee, bulking up the group’s ability to preserve water quality across the North Shore and beyond. George Hoffman, a board member with the Setauket Harbor Task Force, said his group’s new spot on the advisory committee should provide them with greater resources to achieve their goals of protecting the waters of Three Village.

“We are pleased to be named to the bi-state commission,” he said. “Being a member of the CAC will benefit Setauket Harbor and provide us an opportunity to collaborate with other harbor protection committees on both sides of the Long Island Sound.”

From left, Sean Mahar of NY Audubon, George Hoffman of the Setauket Harbor Task Force, Curt Johnson of the LI Sound Study CAC and state Assemblyman Steve Englebright meet at a recent meeting of LISS. Photo from George Hoffman
From left, Sean Mahar of NY Audubon, George Hoffman of the Setauket Harbor Task Force, Curt Johnson of the LI Sound Study CAC and state Assemblyman Steve Englebright meet at a recent meeting of LISS. Photo from George Hoffman

The Long Island Sound Study was established in 1985 under the U.S. Environmental Protection Agency’s efforts to restore the health of the Sound and coordinate water quality activities among the various entities. Since 2005, the study has utilized collaborative funding to distribute more than $11.7 million to regional municipalities, environmental organizations and research institutions to improve the Long Island Sound’s water quality and coastal resiliency.

“The LISS CAC welcomes the Setauket Harbor Task Force as a member and is happy to

have new representation from New York and the central basin,” said Nancy Seligson, co-chair of the CAC and supervisor of the Town of Mamaroneck in Westchester County, “We look forward to working together to restore Long Island Sound.”

Since it was formed last year, the task force has been expanding in size and reach with help from volunteers across the North Shore, including Port Jefferson and Setauket. Hoffman and the task force attended a press conference alongside U.S. Sen. Kirsten Gillibrand (D-NY) late last month to announce the Long Island Sound Restoration and Stewardship Act, a congressional bill that would allocate up to $65 million each year for Long Island Sound initiatives that include various water quality projects, cleanup projects, waste water treatment improvements and nitrogen monitoring programs.

Hoffman also said the group recently took some comfort in a Long Island Sound Founders Collaborative report, which found some improvement in the Sound’s harbors and bays, but also exposed what he called concerning levels of hypoxia — the lack of dissolved oxygen in the water — that threatens fish and shellfish. The same symptom found itself at the forefront of Long Island media over the month of June after several hundreds of dead fish surfaced in waters surrounding the Island.

The Setauket Harbor Task Force most recently met with Brookhaven Town officials to discuss the maintenance of the town’s major stormwater basin that drains directly into the harbor. They also met with marine scientists from Stony Brook University to call for greater restrictions on the removal of horseshoe crabs from town beaches.

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Doug Fearon. Photo from CSHL

Determined to help develop better treatments and, perhaps even a cure, Douglas Fearon, a medical doctor, decided to conduct research instead of turning to existing remedies. More than two decades later, Fearon joined Cold Spring Harbor Laboratory and is working on ways to help bodies afflicted with cancer heal themselves.

Fearon is focusing on the battle cancer wages with the T lymphocytes cells of human immune systems. Typically, these cells recognize threats to human health and destroy them. The pancreatic cancer cells he’s studying, however, have a protective mechanism that is almost like a shield. “The cancer is killing the T cells before the T cells can kill the cancer,” said Fearon.

The T cells have a complex signaling pathway on their surface that allows them to link up with other objects to determine whether these cells are friend or foe. In pancreatic cancer, Fearon has focused on a receptor that, when attached to the deadly disease, may disarm the T cell.

Researchers had already developed a small molecule that blocks the receptor on the T lymphocytes from linking up with this protein for another disease: the human immunodeficiency virus. When Fearon applied this molecule to a mouse model of pancreatic cancer, the therapy showed promise. “Within 24 hours, T cells were infiltrating the cancer cells,” he said. “Within 48 hours, the tumors had shrunk by 15 percent. This drug overcame the means by which cancer cells were escaping.”

This month, doctors at the University of Cambridge School of Clinical Medicine, where Fearon worked for 20 years, plan to begin Phase I human trials of this treatment for pancreatic cancer. Later this year, doctors at the Weill Cornell Medical College in New York City, where Fearon has a joint appointment, will begin a similar effort.

Scientists are encouraged by the early results from Fearon’s treatment. The Lustgarten Foundation named Fearon one of three inaugural “Distinguished Scholars” last year, awarding him $5 million for his research over the next five years.

The scientific advisory board at the Foundation “expects distinguished scholars to be on the leading edge of breakthrough therapies and understanding for this disease,” said David Tuveson, a professor and director of the Lustgarten Foundation Pancreatic Cancer Center Research Laboratory at CSHL.

During the early stage trials, doctors will increase the dosage to a level HIV patients had received during early experiments with the drug, called AMD 3100 or Plerixafor.

While Fearon is cautiously optimistic about this approach, he recognizes that there are many unknowns in developing this type of therapy. For starters, even if the treatment is effective, he doesn’t know whether the cancer may recur and, if it does, whether it might adapt some way to foil the immune system’s attempt to eradicate it.

Additionally, the receptor the doctors are blocking is required for many other functions in humans and mice. In mice, for example, the receptor on the T cell has a role in the developing nervous system and it also plays a part in a process called chemotaxis, which directs the migration of a cell.

“After giving this drug to HIV patients for 10 days, there were no long-term effects,” Fearon said. Researchers and doctors don’t “know for sure if you continued blocking this receptor what the long-term effects” would be.

Fearon and his wife Clare are renting a cottage in Lloyd Neck and have an apartment on the Upper East Side. Their daughter Elizabeth recently earned her Ph.D. in epidemiology in Cambridge, England while their son Tom, who is working toward a graduate degree in psychology, is interested in a career in counseling.

A native of Park Slope, Brooklyn who was the starting quarterback for Williams College in Massachusetts in his junior and senior years, Fearon feels it’s a “privilege to do something that may have a positive effect” on people’s lives.

Fearon is especially pleased to work at CSHL, where he said he can collaborate with colleagues who often immediately see the benefits of such a partnership. He has worked with Mikala Egeblad on intravital imaging, which is a type of microscope that allows him to look at living tissue. They are sharing the cost of buying a new instrument. Working with her “facilitated my ability to start up a project in my lab using a similar technique,” Fearon said.