What new tools and extra powers are available to you through the library's subscription databases? Join faculty librarian Chris Kretz, Head of Academic Engagement, on a tour of what's available and how you might best use them.
You are cordially invited to attend the biweekly Brookhaven AI Mixer (BAM). BAM includes one short talk on AI research happening at BNL, followed by an open mixer over coffee and snacks for everyone to network and discuss all things AI. The first half hour will consist of presentations that will be available via ZOOM, and the second half hour will be for in person only networking.
Abstract: Two-dimensional (2D) materials such as graphene, hBN, and TMDs offer atomically sharp interfaces and unprecedented tunability when vertically assembled into van der Waals heterostructures. These stacks have enabled discoveries ranging from moiré superconductivity and correlated insulators to quantum emitters and next-generation nanoelectronic devices. Yet constructing high-quality heterostructures remains largely artisanal: researchers manually identify exfoliated flakes, align a polymer stamp by eye, and finely adjust temperature and contact geometry through tacit skill. This manual workflow is difficult to reproduce, scales poorly, and prevents systematic exploration of the enormous combinatorial space of materials, twist angles, and interfacial conditions. AutoLab is an autonomous platform that translates this tacit human expertise into programmable, feedback-driven control. Instead of pressing flakes with predefined trajectories, AutoLab uses machine vision to detect polymer-wafer contact, dynamically regulates contact evolution through closed-loop actuation and temperature control, and captures high-quality flakes with the cleanliness and precision of expert manual fabrication. The system integrates perception, decision making, and motion planning into a single robotic framework, enabling reproducible stacking, wafer-level coverage, and accelerated discovery. Beyond 2D materials, AutoLab illustrates a broader paradigm for AI-native scientific automation: codifying human experimental reasoning into algorithms that interrogate data in real time, adaptively adjust instrumentation, and generate scalable, high-fidelity datasets. Such platforms could generalize to diverse research domains--quantum device fabrication, optical alignment, surface science, autonomous microscopy, and other workflows where expert intuition currently limits throughput and reproducibility. By bridging artisanal manipulation and robotic autonomy, AutoLab points toward a future where scientific discovery is accelerated by machines that not only execute instructions, but learn, respond, and collaborate with human scientists.
Biography: Dr. Yutao Li is a research associate from Department of Condensed Matter Physics and Material Science, Brookhaven National Laboratory. He has 8 years of experience in 2D material sample fabrication, and investigation in their electronic transport, optical and mechanical properties.
Join us every other Tuesday at noon in CDSD's Training Room (building 725, 2nd floor) to learn about interesting AI methods and applications, engage with potential collaborators, prepare for pending FASST funding calls, and build a community of AI for Science at BNL.
Location: CDS, Bldg. 725, Training Room
Join ZoomGov Meeting: https://bnl.zoomgov.com/j/1604383624?pwd=ffQ5cUPNxTI7nzClKQO6cnsNbhF9Vf.1
Meeting ID: 160 438 3624
Passcode: 558449
Abstract: Humans perceive the world around them by recognizing global patterns and structures such as object parts, branches, their spatial arrangement, and so on. Most deep learning models, however, take a fundamentally local approach. They process images pixel-by-pixel rather than focusing on structures as a whole. While these models indeed perform well on many tasks, the local (pixel-level) versus global (structure-level) disconnect makes them harder to interpret and control.
Topology, in a general sense, is a mathematical language for describing structure. It delineates how different parts of an image relate to one another, capturing both individual structures and their overall layout. Preserving topology enforces structural correctness and, by extension, semantic validity.
In this thesis, we investigate how topological constraints can be used to bridge the gap between local and global understanding. We use topology to inform the design of deep learning models that are explicitly structure-aware. Our thesis focuses on dense prediction tasks, which include image segmentation, uncertainty estimation, and generative modeling. First, we introduce a topological interaction module for semantic segmentation that encodes containment and exclusion constraints directly into the learning process. This preserves anatomical hierarchies and improves multi-class consistency. Next, since segmentation models can never be truly perfect, we address the need for reliable uncertainty estimation to identify error-prone regions. Unlike conventional pixel-wise uncertainty maps, which tend to be noisy and difficult to interpret, we propose reasoning at the level of structural units--branches and connections--which are more visually discernible and actionable. Finally, we leverage topology for generative modeling. We propose a topology-guided diffusion framework that can be controlled using structural attributes like object count and connectivity.
Together, these contributions establish a unified approach to topology-informed, structure-preserving dense prediction models. By integrating topological reasoning with deep networks, this thesis advances models that are not only accurate, but also structurally consistent, interpretable, and controllable. The results from this thesis have been published in ECCV, NeurIPS, and ICLR.
Speaker: Saumya Gupta
Location: New Computer Science (NCS) 120
Zoom: https://stonybrook.zoom.us/j/
Topology, in a general sense, is a mathematical language for describing structure. It delineates how different parts of an image relate to one another, capturing both individual structures and their overall layout. Preserving topology enforces structural correctness and, by extension, semantic validity.
In this thesis, we investigate how topological constraints can be used to bridge the gap between local and global understanding. We use topology to inform the design of deep learning models that are explicitly structure-aware. Our thesis focuses on dense prediction tasks, which include image segmentation, uncertainty estimation, and generative modeling. First, we introduce a topological interaction module for semantic segmentation that encodes containment and exclusion constraints directly into the learning process. This preserves anatomical hierarchies and improves multi-class consistency. Next, since segmentation models can never be truly perfect, we address the need for reliable uncertainty estimation to identify error-prone regions. Unlike conventional pixel-wise uncertainty maps, which tend to be noisy and difficult to interpret, we propose reasoning at the level of structural units--branches and connections--which are more visually discernible and actionable. Finally, we leverage topology for generative modeling. We propose a topology-guided diffusion framework that can be controlled using structural attributes like object count and connectivity.
Together, these contributions establish a unified approach to topology-informed, structure-preserving dense prediction models. By integrating topological reasoning with deep networks, this thesis advances models that are not only accurate, but also structurally consistent, interpretable, and controllable. The results from this thesis have been published in ECCV, NeurIPS, and ICLR.
Speaker: Saumya Gupta
Location: New Computer Science (NCS) 120
Zoom: https://stonybrook.zoom.us/j/
NLP Reading Group | Fall 2025
The Natural Language Processing Reading Group at Stony Brook University meets weekly to discuss recent research papers in NLP and related fields.
Join the Google Group here.
The Natural Language Processing Reading Group at Stony Brook University meets weekly to discuss recent research papers in NLP and related fields.
Join the Google Group here.
Does This Vehicle Belong to You? Processing the Language of Policing for Improving Police-Community Relations
Dan Jurasky (Stanford)
Designed for faculty, staff, presidents, provosts, academic leaders, student affairs professionals, IT specialists, librarians, researchers, administrators, institutional decision-makers, and other higher education stakeholders, the conference highlights practical strategies institutions can implement now while exploring longer-term governance, policy, and ethical considerations. Participants will leave with concrete tools, cross-institutional insights, and collaborative connections that support mission-aligned AI innovation.
Hosted by: AAC&U
Location: Atlanta, GA and Virtual
Register here.
Join University Libraries for an engaging panel discussion where we delve in and learn about the impacts of artificial intelligence on the 2024 US elections! Panelists are Paige Lord, Tom Costello, and Musa al-Gharbi. The discussion will be moderated by Library Dean, Karim Boughida. Co-sponsored by the Office of Diversity, Inclusion, and Intercultural Initiatives.
Please RSVP for Democracy in the Digital Age: AI's Influence on 2024 Elections here.
https://stonybrook.zoom.us/j/
Meeting ID: 980 7952 6509
Passcode: 949941
supervised learning algorithms. However, in stark contrast to young animals (including humans), training such
networks requires enormous numbers of labeled examples, leading to the belief that animals must rely instead
mainly on unsupervised learning. The reason is that most animal behavior is not the result of clever learning
algorithms--supervised or unsupervised-- but is encoded in the genome. Specifically, animals are born with
highly structured brain connectivity, which enables them to learn very rapidly. Because the wiring diagram is
far too complex to be specified explicitly in the genome, it must be compressed through a genomic
bottleneck. I will describe results showing how the genomic bottleneck algorithm can lead to dramatic
compression of networks and better generalization, particularly for rapid transfer in supervised and
reinforcement learning.
Anthony Zador is professor of neuroscience at CSHL.
Simons Laufer Mathematical Sciences Institute presents...
In 2023, Tudor Achim co-founded Harmonic with Vlad Tenev to build the world's most advanced reasoning engine. Combining formal verification with informal reasoning, Harmonic's formal reasoning model, Aristotle, achieved gold-medal-equivalent performance on the 2025 International Mathematical Olympiad problems. Aristotle integrates three main components: a Lean proof search system, an informal reasoning system that generates and formalizes lemmas, and a dedicated geometry solver.
Achim is also the Co-Founder and former CTO of Helm.ai. He holds a B.S. in Computer Science from Carnegie Mellon University and was a PhD Candidate in Computer Science at Stanford University.
Register here: https://slmath.us10.list-manage.com/track/click?u=d58ee2e82c69809ff037f56b2&id=f07a675f6f&e=f1b6ba91e6
AI Seminar: Computational Pathology: Deep Learning, Classification and
Predicting the Future - Joel Saltz
Abstract: Pathologists have been looking at tissue through microscopes since the 1800s. During each pathologist's career, he or she views slides having roughly 1,000,000,000,000 cells. Deep learning methods are rapidly being developed to assimilate the huge amount of information walked inside of tissue images and to use this information to predict outcomes and responses to treatments.
Stony Brook is a leader in this type of multi-disciplinary work. I will provide an overview of Stony Brook computational Pathology efforts and articulate how these have the potential to create biomedical advances as well as to drive development of new computer science.
Bio: Dr. Joel Saltz is a leader in research on advanced information technologies for large scale data science and biomedical/scientific research. He has developed innovative pathology informatics methods, including: the first published whole slide virtual microscope system; pioneering pathology computer-aided diagnosis techniques; and methods for decomposing pathology images into features and linking those features to cancer omics, response to treatment and outcome. He has broken new ground in big data through development of the filter-stream based DataCutter system, the map-reduce style Active Data Repository and the inspector-executor runtime compiler framework. He has also been an active contributor in clinical informatics, having developed
predictive models for hospital readmissions, point of care laboratory testing quality assurance systems, decision support systems for electrophoresis interpretation and graphical user interfaces to support clinical data warehouse queries. Dr. Saltz has been a pioneer in establishing the field of biomedical informatics; he founded and built two highly successful departments of biomedical informatics, one at Ohio State University and one at Emory University. In 2013, he came to Stony Brook as Vice President for Clinical Informatics and Founding Department Chair of Biomedical Informatics - to create a living laboratory for biomedical informatics and to create a third unique biomedical informatics department dually housed in the School of Medicine and the College of Engineering. Dr. Saltz is trained both as a computer scientist and as a physician through the MSTP program at Duke University. He has deep experience in computer science, having served on the computer science faculties at Yale University and the University of Maryland. He completed his residency in clinical
pathology at Johns Hopkins University and he is a practicing, board-certified clinical pathologist.
Predicting the Future - Joel Saltz
Abstract: Pathologists have been looking at tissue through microscopes since the 1800s. During each pathologist's career, he or she views slides having roughly 1,000,000,000,000 cells. Deep learning methods are rapidly being developed to assimilate the huge amount of information walked inside of tissue images and to use this information to predict outcomes and responses to treatments.
Stony Brook is a leader in this type of multi-disciplinary work. I will provide an overview of Stony Brook computational Pathology efforts and articulate how these have the potential to create biomedical advances as well as to drive development of new computer science.
Bio: Dr. Joel Saltz is a leader in research on advanced information technologies for large scale data science and biomedical/scientific research. He has developed innovative pathology informatics methods, including: the first published whole slide virtual microscope system; pioneering pathology computer-aided diagnosis techniques; and methods for decomposing pathology images into features and linking those features to cancer omics, response to treatment and outcome. He has broken new ground in big data through development of the filter-stream based DataCutter system, the map-reduce style Active Data Repository and the inspector-executor runtime compiler framework. He has also been an active contributor in clinical informatics, having developed
predictive models for hospital readmissions, point of care laboratory testing quality assurance systems, decision support systems for electrophoresis interpretation and graphical user interfaces to support clinical data warehouse queries. Dr. Saltz has been a pioneer in establishing the field of biomedical informatics; he founded and built two highly successful departments of biomedical informatics, one at Ohio State University and one at Emory University. In 2013, he came to Stony Brook as Vice President for Clinical Informatics and Founding Department Chair of Biomedical Informatics - to create a living laboratory for biomedical informatics and to create a third unique biomedical informatics department dually housed in the School of Medicine and the College of Engineering. Dr. Saltz is trained both as a computer scientist and as a physician through the MSTP program at Duke University. He has deep experience in computer science, having served on the computer science faculties at Yale University and the University of Maryland. He completed his residency in clinical
pathology at Johns Hopkins University and he is a practicing, board-certified clinical pathologist.