Faculty Spotlight: Nick Pizzo (GSO)

How can we gather more insight from data to solve problems in the world today? This is one of the most fundamental questions driving the artificial intelligence boom. It’s also one that GSO Assistant Professor of Oceanography Dr. Nick Pizzo is no stranger to posing, and recently it led him and his collaborators into the pages of Nature Geoscience.

One of the ways that physical oceanographers like Dr. Pizzo can remotely observe ocean currents is using data from satellite altimeters. These satellites send signals down to Earth’s surface as they orbit, and they can infer the elevation of the surface based on the time it takes for the signal to bounce back. At large spatial scales, there is a simple relationship between the tilt of the sea surface and the surface currents, so velocities can be backed out from the altimetry data. However, satellite altimeters are only able to determine the surface elevation below them in this way and they take weeks to return to the same location. Their spatial resolution is also relatively low, which naturally limits the resolution of the currents you can infer from them.

While looking at infrared readings from geostationary weather satellites, Dr. Pizzo and his collaborators began to wonder if they could leverage that data to derive surface currents instead. These satellites work together to provide snapshots every 5 minutes at ~2-km resolution around the globe, so if they could somehow tease out velocities from the data, that would allow them to resolve features at substantially smaller scales than before, all without a single in-situ measurement or the deployment of additional hardware. However, infrared readings map back to sea surface temperature, not velocities, so extracting velocities from that data is still quite a hurdle.

“You can look through cloud covered regions and start to see that there are structures underneath,” Dr. Pizzo explained. “We’re coming from the fluid mechanics world, where if you have texture, and you have a bunch of frames…you want to do a correlation between the frames.” In other words, one might attempt to programmatically identify connections between structures present in subsequent frames in order to infer the average velocities required for those structures to change locations. Dr. Pizzo continued, gesturing to a sea surface temperature plot on his computer screen, “But if you do that in this scenario, there are all these interweaving braids – so that it’s very difficult to correlate across frames.” What is one to do in the year 2026 when you have a lot of data, a targeted question to ask, and traditional methods just aren’t cutting it? Enter machine learning!

Dr. Pizzo and his collaborators decided to attack this problem by developing a U-Net, a type of neural network designed for image segmentation. In order to train their U-Net, they first needed to generate a massive amount of training data, which they accomplished by using a run of the MIT Global Circulation Model at approximately the same spatial resolution of the geostationary satellite data: a very computationally-expensive undertaking. They also needed ample access to high-performance GPUs in order to train and run their machine learning model. For this study, computing resources were provided by the Expanse cluster at the San Diego Supercomputer Center. As is often the case at high-performance computing clusters nowadays amid the rise of AI and machine learning, hardware demand can be a major issue to navigate. “These are tools people want to use, so you have to get in line. And that’s okay!” Dr. Pizzo acknowledged. “I think we are so fortunate to live in a world where you have access to these types of resources.”

That sense of gratitude is unsurprising given both Dr. Pizzo’s personality and the wild success of the project. After a couple of years of hard work, the team’s effort and electricity paid off in the form of their Geostationary Ocean Flow (GOFLOW) product, a deep-learning product capable of deriving high-resolution surface currents from geostationary satellite data. The resolution and favorable comparison with altimetry data – see Figure 3 in the paper – was enough to make my jaw drop. “It’s like putting on glasses, right?” laughed Dr. Pizzo. The high-resolution velocity fields generated by GOFLOW also allow for the computation of quantities including vorticity (i.e. rotation of the fluid) and the notoriously difficult to compute horizontal divergence (i.e. spreading of the fluid), which can in turn give more insight into the movement of different water masses, including dynamics below the surface (e.g. upwelling or downwelling).

As it turns out, similar deep learning methods potentially valuable for solving a wide variety of different problems. Andy Goering, a graduate student working with Dr. Pizzo, is currently applying the method at very small scales in order to get at some of the fundamental physics relating to the interactions between the wind, waves, and currents. For example, how exactly does the wind generate the initial millimeter-scale surface wrinkles that ultimately grow into full-sized waves? A major hurdle to clear en route to answering this question is to determine flow velocities around the air-sea interface. Andy and Dr. Pizzo see room to apply machine learning to this problem as well, except this time using lab images of tiny particles injected into wind blowing over waves rather than sea-surface temperature fields, and using training data generated from Oceananigans, a GPU-ready software for fluid dynamics simulations, rather than MITgcm. There are some outstanding challenges, such as particles being more sparse near the surface and some uncertainty around how much physics they’ll need to put into the training data generation to get reasonable answers, but it is another promising application of this technique.

Although he also began his research computing efforts on Expanse, Andy has since moved over to Unity, a high-performance computing cluster housed at the Massachusetts Green High-Performance Computing Center in Holyoke, MA. URI is a partnering institution at the Unity cluster, which means that Unity is free to use for URI researchers like Dr. Pizzo and Andy. This removes a common logistical hurdle for studies that require substantial computing resources and can allow researchers’ grant dollars to go further. Andy cosigned: “It is definitely nice not having to worry about requesting more resources!” He has also found that the highest-performing GPUs, which he needs for his research, are more readily accessible on Unity and that the system has been reliable. Like Dr. Pizzo, Andy feels that his biggest research computing challenge is the competition for limited resources, and he also has a positive outlook on the inevitable bottlenecks. “Of course, we wouldn’t have access to these resources if they weren’t getting used!” he chuckled.

When asked for advice for others who would want to get into machine learning, or other technical research computing, Dr. Pizzo was as encouraging as ever: “It’s never been easier – if you have the data, and you feel like you need just one additional piece of information to make sense of things, we’re now in a time where you can learn things that you couldn’t in the past… There are more people to help, and there are fewer barriers. It’s just another tool for us to use to learn about how things work.” He added that there’s less stigma now than ever around doing research with models and software tools; he considers himself an observationalist, but acknowledges that these tools can allow you to extract insight from that data. “If these models are the way of the future they need legitimate data. Now we need to focus on that part of the problem.”

Dr. Pizzo seems to have a knack for seeing which way the currents are going, so I think we can take him at his word! There really has never been a better time to jump into research computing, and the Institute for AI and Computational Research at URI is here to help.

Sincere thanks to Dr. Nick Pizzo and Andy Goering for taking the time to be interviewed for this article.

Written by Josh Port.

Faculty Spotlight: Chris Hemme (Pharmacy)

Bridging the Gap: How Research Computing Powers the Future of Molecular Informatics

At the University of Rhode Island, the move toward data-intensive research is led by scientists who maintain a dual fluency in biological systems and the high-performance computing environments used to analyze them. For Dr. Christopher Hemme, Director of the Rhode Island INBRE Molecular Informatics Core, URI’s research computing infrastructure is the backbone of a mission to democratize data science for biomedical researchers across the region.

A Multidisciplinary Hub for Discovery
Dr. Hemme leads the data science core within the Rhode Island IDeA Network of Biomedical Research Excellence (INBRE), a program designed to complement instrumentation facilities with advanced computational support. His work is remarkably diverse, spanning bioinformatics, data management, and even 3D science visualization.
The Core’s impact is felt across a wide array of specialized projects. Currently, Dr. Hemme is working with Dr. Jamie Ross and Dr. Giuseppe Cappotelli to develop a pipeline for analyzing mitochondrial damage in mouse models related to aging and Alzheimer’s disease. Simultaneously, he is collaborating with Dr. Nisa Ghonem on proteomics and metabolomics related to liver disease, and utilizing the NIH’s “All of Us” database to conduct large-scale cohort studies and genome-wide association analyses (GWAS).
Beyond the bench, the Core is also pushing the boundaries of training and education. “We partner with IT services to build VR apps for training and research,” Dr. Hemme explains. This includes the HERBAL project with Dr. David Rowley that has created a virtual medicinal garden, coral reef, and research laboratories to train high school students in the methods of natural product chemistry.

Unity: From Unreliable Servers to High-Performance Power
The landscape of research computing at URI has shifted dramatically during Dr. Hemme’s tenure. He recalls a time when the network relied on small, unreliable clusters and localized servers that weren’t powerful enough for modern genomic demands. The development of the Unity cluster over the last decade has been a game-changer.
“Having Research Computing built up has been very helpful, especially as we get into AI,” says Dr. Hemme. “Unity, in particular, is a great resource. If you’re not familiar with the command line, the interactive resources available through Unity make it much more accessible to researchers than it would have been in the past.”
For the INBRE network, which includes researchers at smaller undergraduate institutions (PUIs) with limited local resources, the ability to gain affiliate status on Unity is critical. It allows scientists across Rhode Island to access the same high-level computing power as those at major research universities, simplifying workflows and removing the burden of server maintenance.

Navigating the Multi-Omics Era
As sequencing instruments and mass spectrometers generate increasingly massive datasets—often reaching the terabyte range—Dr. Hemme sees URI’s Open Storage Network (OSN) as fundamental for archiving and data management.
The complexity of the work is also evolving. Dr. Hemme is currently preparing students for a “new era” of research that moves beyond bulk sequencing into spatially resolved multi-omics. This requires integrating noisy data from different molecular levels—transcriptomes, proteomes, and metabolomes—and correlating them with health outcomes.
“It’s a nightmare to integrate all of it,” Dr. Hemme admits. “It requires significant integration strategies to get these different noisy omics levels integrated together. I tell my students: everything is regression. If you learn regression, you can do a lot of data science.”

The AI Frontier in Pharmacology
One of the most exciting growth areas for the Core is the application of Artificial Intelligence. Dr. Hemme is currently working on an “AI agent” for pharmacology, built to access generalist databases and repositories with less structured data than traditional sources like PubMed. This agent aims to automate workflows and feed a broad array of data into scientific analysis.
He is also tackling the challenges of AI in structural biology, working to build a training set that can recognize components in complex multi-figure illustrations. “It’s a challenge because there’s so much variety in images—from old pencil drawings to modern, stereoscopic illustrations,” Dr. Hemme notes. “We’ve pulled about 150 images so far to help the model find what’s specifically interesting about a structure.”

Mentorship and the “Black Box” Problem
Despite the high-tech tools, Dr. Hemme insists that researchers remain deeply involved in the process. He works to ensure that bioinformatics tools do not become “black boxes” where data goes in and results come out without critical oversight.
“Even if someone comes to me and lets me do their analysis, I don’t necessarily know their biological system,” he says. “The researcher needs to be able to determine if the pipeline is working correctly and if the results make sense. The more familiar you are with these resources, the better we can communicate.”

Advice to the URI Community
Dr. Hemme’s advice for faculty and students is to move past the intimidation factor and embrace the scale of what is possible at URI.
“I’d strongly encourage anyone to use these resources. In a lot of cases, people don’t know what’s possible, so they try to do things on laptops that don’t have the resources,” he notes. “It’s a good investment to learn a little bit of what’s happening under the hood. It makes your workflows more efficient and your science more robust.”

Written by Leann Biancani and Cecile Cres.

Faculty Spotlight: Russell Shomberg (Engineering)

Dr. Russell Shomberg is a Research Associate at GSO and an Adjunct Professor in the Department of Ocean Engineering. Dr. Shomberg gained experience applying IDR methods while working under Dr. Christopher Metzler at UMD. He will be acting as project lead. His experience with both ocean robotics and AI applications will be valuable in bridging both fields.

QUESTIONS & ANSWERS

  1. Could you tell us about the focus of your research and what scientific questions you’re addressing?
    My research bridges the gap between technology development and ocean science field applications. I work closely with field researchers to develop an understanding of their goals, methods, and struggles. At the same time, I keep a close eye on emerging technology from the engineering fields. I’m particularly passionate about using technology to lower costs and improve ocean science accessibility for local communities. I especially enjoy working in difficult environments like the polar oceans and deep sea. Most recently, I have focused on leveraging multi-sensor fusion and inverse differential rendering techniques to develop 3D reconstructions of deep sea habitats and icebergs.
  2. How has access to URI’s research computing resources and team impacted your ability to pursue this work?
    Utilizing URI’s research computing resources has allowed me to pull students and collaborators into my work and scale my computing resources to match my needs and team. While I personally have access to a modern GPU, I am interested in developing methods that can be shared and utilized across the wider ocean science community. I can introduce students to the work without worrying about resource limitations. I can even temporarily scale to meet the needs of teaching applications or workshops.
  3. Can you share a specific project or breakthrough where HPC, AI, quantum or data resources played a critical role?
    HPC has been incredibly important for my work developing 3D reconstructions of icebergs. I have been working with a student team from the AI lab for this project comparing reconstructions using neural radiance fields (NeRFs) to ones made with traditional photogrammetry methods. URI’s HPC resources have allowed the student team to form quickly and work independently due to their access to resources.
  4. What kinds of challenges (computational, data-related, or otherwise) have you faced, and how has our team helped you overcome them?
    One of the biggest challenges for the iceberg reconstruction project is the difficulty of installing all the necessary software packages. Each requires conflicting versions of python and other dependencies. With Unity, and help from the support team, my student team was able to install the different packages utilizing Conda environments following easy to replicate instructions.
  5. Have you or your team participated in any of our training programs, workshops, or consultations? If so, how did they contribute to your research?
    The iceberg reconstruction student team participated in the recent Hack@URI event on campus. In particular, Matthew Barbrack represented us with a live demonstration using Gaussian Splatting to develop 3D reconstructions of interested students and guests. This live demonstration helped develop interest in potential applications for inverse differential rendering methods throughout the URI community.
  6. In what ways have collaboration opportunities through computing enhanced your group’s productivity or broadened your research opportunities?
    For the iceberg reconstruction project, I was able to start working immediately with a student team from the AI Lab as well as get access to HPC resources through Unity. Through this relationship, I was able to develop a relationship with the AI Lab and have even submitted a proposal for an internally funded grant to continue our collaboration on more applications.
  7. Looking ahead, how do you see your research evolving, and what role do you anticipate research computing will play in that future?
    I see massive growth in applied AI applications in the future. While AI research has exploded in recent years, much of that work as gone towards solving toy problems to demonstrate the technology and benchmarking of new models. In the ocean sciences, very little AI is used outside extremely established methods like object classifiers for images. I believe there is still tons of potential for existing AI methods to find applications across many scientific disciplines. I want to continue to look for new ways to apply established AI methods in ocean sciences. Furthermore, I’d like to get more AI researchers out into field, so they can imagine new collaborative possibilities!
  8. What advice would you give to other faculty or students considering leveraging URI’s research computing resources?
    I strongly recommend faculty and students take advantage of URI’s computing resources. The AI Lab in particular is a great resource for finding out what may be possible even if you don’t yet know how AI can be applied to your specific research.

Madhu successfully defends his PhD dissertation!

We’re thrilled to report that the former long-time member of the AI Lab, Madhukara Kekulandara, has successfully passed his PhD dissertation defense!

Congratulations, Dr. Madhu Kekulandara!

Indrani Mandal and Gaurav Khanna from the IACR along with CIO Gabriele Fariello were invited to present at the State House for a meeting of the Senate Committee on AI and Emerging Tech. The topics where:

  • AI demos, Q&A [Indrani Mandal, 30 minutes]
  • URI plans on AI workforce development programs [Indrani Mandal, 5 minutes]
  • HPC Infrastructure [Gaurav Khanna, 10 minutes]
  • AI@URI [Video]

A full recording of the session is available here: https://capitoltvri.cablecast.tv/show/11713

LIGHTNING TALKS & NETWORKING

AI & ADVANCED COMPUTATIONALLY ENHANCED RESEARCH APPROACHES

 

MARCH 6. 2026. 11:15 am – 12:45 pm

ANCHOR ROOM, URI WELCOME CENTER

Contact: jpeckham@uri.edu

Hosts: 

  • The URI Office of Research Development 
  • The Institute for Artificial Intelligence and Computational Research (IACR)

Intended Audience: Faculty and graduate researchers.

Hear from URI Researchers who have harnessed AI and Advanced Computation to enhance research in multiple disciplines. Included will be lightning talks from:

  • Alina Barnett – Assistant Professor – alina.barnett@uri.edu – Classifying ICU Seizures with the Betta Fish of Interpretability
  • Peter Liu – Assist. Prof, Mathematics -pengyu.liu@uri.edu – Artificial intelligence advances infectious disease research
  • Nic Fisk – Assist. Prof., CELS – j.nicholas.fisk@uri.edu – Who Knows? AI and the Voice of Science
  • Deborah Ferguson – Assistant Professor, Physics – deborah.ferguson@uri.edu – Using neural networks to efficiently explore the binary black hole parameter space
  • Yalda Shahriari – Assoc. Prof., ECBE, Biomedical Engineering and Director of the NeuralPC Lab – yalda_shahriari@uri.edu – Multi-view Convolutional Neural Network for Neuroimaging Data Fusion 
  • Cecile Cres – Computational Scientist, IACR – cecile_cres@uri.edu – Application of AI to metagenomics data analysis
  • Yana Hrytsenko – Postdoc, CELS – yana_hrytsenko@uri.edu – Genome analysis with AI: from evolution to precision medicine
  • Manshu Yang, Assoc. Prof, Psychology – myang@uri.eduy – Advanced Computational Techniques for Analyzing Ecological Momentary Assessment (EMA) Data

 

 

Talks will begin at 11:15 a.m., followed by networking and snacks.

The goal is to provide inspiration and support for those who are just beginning to think about using AI and/or advanced computational approaches in their research in any discipline. The talks will be 3 minutes each, with about 1-2 minutes of questions. 

Space is limited and there are only a few seats left. Please register by Thursday February 26 to reserve a seat and help us order snacks