Stevens physics prof develops machine learning based data analysis platform for satellite ocean color sensors

Stevens uses machine learning-driven techniques to develop a long-awaited tool that better reveals the health of Earth's oceans and the impacts of climate change

Researchers at Stevens Institute of Technology have developed a new machine learning-powered platform, known as OC-SMART, that can process ocean color in satellite images 10 times faster than the world's leading platform. The work, which will be adopted by NASA, is one of the first machine learning-based platforms in ocean color analysis that can process both coastal and open ocean regions globally to reveal data on sea health and the impact of climate change.

The work, led by Knut Stamnes, a physics professor at Stevens, and spearheaded by Yongzhen Fan Ph.D. '16, a visiting physics scholar in Stamnes' lab, solves a 30-year-old problem in retrieving data from both coastal regions and open ocean areas. For decades, NASA's SeaDAS platform excelled at analyzing ocean color from the open ocean with clean air, but it frequently recovered inaccurate results from coastal areas and inland waters such as the Great Lakes, where the complex interplay among the atmosphere, sea, light, reflections, and air particulates made analysis difficult.

"It is vital to study coastal areas and inland waters," said Stamnes, an expert on radiative transfer whose work appears in the December 2020 issue of Remote Sensing of Environment. "Even though these areas make up a small fraction of the world in terms of mass, it's where we live and where all the biological activity happens." The goal of OC-SMART is to improve the quality of global ocean color products retrieved from satellite sensors, especially under complex environmental conditions. The top image shows OC-SMART's performance in picking up chlorophyll product compared to previous technology, bottom image.

The OC-SMART platform, or Ocean Color-Simultaneous Marine and Aerosol Retrieval Tool, adds to SeaDAS' capabilities by taking data from satellite imagery and processing them through special algorithms, which are built on powerful machine learning techniques and extensive simulations of radiative transfer. In this project, a radiative transfer is defined as the complex flow of electromagnetic energy between the ocean and the atmosphere. This process impacts how ocean color is perceived and analyzed by SeaDAS, the world's leading platform for processing ocean color from satellite images for decades.

The OC-SMART software will now be incorporated into NASA's SeaDAS platform. Final products of the software include useful data on chlorophyll concentrations and the presence of phytoplankton and pollution, all helpful indicators of the ocean's state. Notably, Stamnes said, OC-SMART will be adapted to the upcoming NASA PACE mission scheduled to launch in 2023. Plankton, Aerosol, Cloud, ocean Ecosystem, or PACE, is a NASA Earth-observing satellite mission that will continue and advance observations of global ocean color, biogeochemistry, and ecology, as well as the carbon cycle, aerosols, and clouds.

"OC-SMART is a general, all-purpose, easy-to-use platform," said Wei Li, a physicist at Stevens who worked on the project and has been contacted by several researchers in other countries since the software became publicly available.

The European Space Agency has a platform similar to OC-SMART, but it focuses mainly on European coastal areas and not worldwide. A tool that could process coastal, as well as open ocean regions globally, as needed, said Nan Chen, a physicist at Stevens who was also involved in the project.

"For years, scientists were having difficulty processing ocean color in coastal regions and places that experience heavy pollution or other air particles such as sandstorms," Fan, the lead author, added. "That's why we developed OC-SMART in order to solve these problems."

The OC-SMART comes at a time when there is growing interest in analyzing ocean color in coastal areas, said Stamnes. OC-SMART is also one of the first tools in ocean color analysis to use machine learning, which has only begun to make inroads into oceanography.

"There are satellites now in orbit that are giving us more information on what's going on around the coasts and in places like the big lakes," said Stamnes. "So, this opens new areas of research. And with machine learning, it's a whole new game."

Surrey's new study reveals that quantum physics can cause mutations in our DNA

An innovative study has confirmed that quantum mechanics plays a role in biological processes and causes mutations in DNA.

Quantum biology is an emerging field of science, established in the 1920s, which looks at whether the subatomic world of quantum mechanics plays a role in living cells. Quantum mechanics is an interdisciplinary field by nature, bringing together nuclear physicists, biochemists, and molecular biologists.

In a research paper published by the journal Physical Chemistry Chemical Physics, a team from Surrey's Leverhulme Quantum Biology Doctoral Training Centre used state-of-the-art supercomputer simulations and quantum mechanical methods to determine the role of proton tunneling, a purely quantum phenomenon, plays in spontaneous mutations inside DNA.

Proton tunneling involves the spontaneous disappearance of a proton from one location and the same proton's re-appearance nearby. quantum wave{module INSIDE STORY}

The research team found that atoms of hydrogen, which are very light, provide the bonds that hold the two strands of the DNA's double helix together and can, under certain conditions, behave like spread-out waves that can exist in multiple locations at once, thanks to proton tunneling. This leads to these atoms occasionally being found on the wrong strand of DNA, leading to mutations.

Although these mutations' lifetime is short, the team from Surrey has revealed that they can still survive the DNA replication mechanism inside cells and could potentially have health consequences.

Dr. Marco Sacchi, the project lead and Royal Society University Research Fellow at the University of Surrey, said: "Many have long suspected that the quantum world – which is weird, counter-intuitive and wonderful – plays a role in life as we know it. While the idea that something can be present in two places at the same time might be absurd to many of us, this happens all the time in the quantum world, and our study confirms that quantum tunneling also happens in DNA at room temperature."

Louie Slocombe, a Ph.D. student at the Leverhulme Quantum Biology Doctoral Training Centre and co-author of the study, said: "There is still a long and exciting road ahead of us to understand how biological processes work on the subatomic level, but our study – and countless others over the recent years – have confirmed quantum mechanics are at play. In the future, we are hoping to investigate how tautomers produced by quantum tunneling can propagate and generate genetic mutations.” 

Jim Al-Khalili, a co-author of the study and Co-Director of the Leverhulme Quantum Biology Doctoral Training Centre at the University of Surrey, said: "It has been thrilling to work with this group of young, diverse and talented thinkers – made up of a broad coalition of the scientific world. This work cements quantum biology as the most exciting field of scientific research in the 21st century.”

UMBC team reveals possibilities of new one-atom-thick materials

New computational research makes reliable predictions about desirable properties of new 2D materials, saving experimental researchers time and money and foreshadowing 'tunable' materials for particular applications

New 2D materials have the potential to transform technologies, with applications from solar cells to smartphones and wearable electronics, explains UMBC's Can Ataca, assistant professor of physics. These materials consist of a single layer of atoms bound together in a crystal structure. In fact, they're so thin that a stack of 10 million of them would only be 1 millimeter thick. And sometimes, Ataca says, less is more. Some 2D materials are more effective and efficient than similar materials that are much thicker.

Despite their advantages, however, 2D materials are currently difficult and expensive to make. That means the scientists trying to create the need to make careful choices about how they invest their time, energy, and funds in development. Left to right: Fatih Ersan, Can Ataca, Gracie Chaney, Jaron Kropp, and Daniel Wines, all members of Ataca's research group, discuss their work on 2D materials. These materials are one-atom-thick sheets that can have useful properties for applications from computers to solar cells and wearable electronics.  CREDIT Marlayna Demond

New research by Daniel Wines, a Ph.D. candidate in physics, and Ataca gives those scientists the information they need to pursue high-impact research in this field. Their theoretical work provides reliable information about which new materials might have desirable properties for a range of applications and could exist in a stable form in nature. In a recent paper published in ACS Applied Materials and Interfaces, they used cutting-edge computer modeling techniques to predict the properties of 2D materials that haven't yet been made in real life.

"We usually are trying to stay five or so years ahead of experimentalists," says Wines. That way, they can avoid going down expensive dead ends. "That's time, effort, and money that they can focus on other things."

The perfect mix

The new paper focuses on the stability and properties of 2D materials called group III-nitrides. These are mixtures of nitrogen and an element from group III on the periodic table, which includes aluminum, gallium, indium, and boron.

Scientists have already made some of these 2D materials in small quantities. Instead of looking at mixtures of one of the group III elements with nitrogen, however, Wines and Ataca modeled alloys--mixtures including nitrogen and two different group III elements. For example, they predicted the properties of materials made of mostly aluminum, but with some gallium added, or mostly gallium, but with some indium added.

These "in-between" materials might have intermediate properties that could be useful in certain applications. "By doing this alloying, we can say, I have orange light, but I have materials that can absorb red light and yellow light," Ataca says. "So how can I mix that so that it can absorb the orange light?" Tuning the light absorption capabilities of these materials could improve the efficiency of solar energy systems, for example.

Alloys of the future

Ataca and Wines also looked at the electric and thermoelectric properties of materials. Material has the thermoelectric capability if it can generate electricity when one side is cold and the other is hot. The basic group III-nitrides have thermoelectric properties, "but at certain concentrations, the thermoelectric properties of alloys are better than the basic group III-nitrides," Ataca says.

Wines adds, "That's the main motivation of doing the alloying--the tunability of the properties."

They also showed that not all of the alloys would be stable in real life. For example, mixtures of aluminum and boron at any concentrations were not stable. However, five different ratios of gallium-aluminum mixtures were stable.

Once production of the basic group III-nitrides becomes more reliable and is scaled up, Wines and Ataca expect scientists to work on engineering the materials for specific applications using their results as a guide.

Back to basics...with supercomputers

Wines and Ataca modeled the materials' properties using supercomputers. Rather than using experimental data as input for their models, "We are using the basics of quantum mechanics to create these properties. So the good part is we don't have any experimental biases," Ataca says. "We're working on stuff that doesn't have any experimental evidence before. So this is a trustable approach."

To get the most accurate results requires huge amounts of computing power and takes a long time. Running their models at the highest accuracy level can take several days.

"It's kind of like telling a story," Wines says. "We go through the most basic level to screen the materials," which only takes about an hour. "And then we go to the highest levels of accuracy, using the most powerful computers, to find the most accurate parameters possible."

"I think the beautiful part of these studies is that we started at the basics and we literally went up to the most accurate level in our field," Ataca adds. "But we can always ask for more."

A new frontier

They have continued to move forward into the uncharted scientific territory. In a different paper, published within a week of the first in ACS Applied Materials and Interfaces, Theodosia Gougousi, professor of physics; Jaron Kropp, Ph.D. '20, physics; and Ataca demonstrated a way to integrate 2D materials into real devices.

2D materials often need to attach to an electronic circuit within a device. An in-between layer is required to make that connection--and the team found one that works. "We have a molecule that can do this, that can make a connection to the material, to use it for external circuit applications," Ataca says.

This result is a big deal for the implementation of 2D materials. "This work combines fundamental experimental research on the processes that occur on the surface of 2D atomic crystals with detailed computational evaluation of the system," Gougousi says. "It guides the device community so they can successfully integrate novel materials into traditional device architectures."

Collaboration across disciplines

The theoretical analyses for this work happened in Ataca's lab, and the experiments happened in Gougousi's lab. Kropp worked in both groups.

"The project exemplifies the synergy that is required for science and technology development and advancement," Gougousi says. "It is also a great example of the opportunities that our graduate students have to work on problems of great technological interest, and to develop a broad knowledge basis and a unique set of technical skills."

Kropp, who is the first author of the second paper, is thrilled to have had this research experience.

"2D semiconductors are exciting because they have the potential for applications in non-traditional electronic devices, like wearable or flexible electronics since they are so thin," he says. "I was fortunate to have two excellent advisors because this allowed me to combine the experimental and theoretical work seamlessly. I hope that the results of this work can help other researchers to develop new devices based on 2D materials."