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: Designing custom proteins could revolutionize medicine and materials, but it remains an immense scientific challenge. Our work uses large-scale AI foundation models to generate novel proteins tailored to bind specific small molecules. Each AI-generated design is passed through a rigorous, multi-stage validation pipeline to ensure it is biophysically realistic. A key innovation is fine-tuning our model with data from molecular dynamics (MD) simulations, exposing it to the conformational dynamics and energetics of protein-ligand binding. This physics-aware training results in novel protein designs with enhanced stability and more effective binding capabilities.

Bio: Xin Dai is an Assistant Computational Scientist in the Artificial Intelligence Department of the CDS. His work centers on AI for Science with a strong focus on computational biology. He earned his PhD in Physics from Tsinghua University.

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 Zoom Meeting: https://bnl.zoomgov.com/j/1604383624?pwd=ffQ5cUPNxTI7nzClKQO6cnsNbhF9Vf.1

Meeting ID: 160 438 3624
Passcode: 558449

Abstract: How do humans learn the sound patterns of their language? Despite a variety of methods and advances in phonotactic learning, there is still a paucity of computational research, methods and data for languages with tones. In this talk, I will explore this question specifically in light of tone languages, where pitch plays a crucial role in distinguishing words' meaning. I provide an implementation of the Bottom-Up Factor Inference Algorithm over Autosegmental Representations (BUFIA-AR), which learns the rules governing possible tone patterns. Using a dataset of Hausa, a West African tone language, the algorithm successfully identifies patterns that are not permitted in the language. These results (i) confirm long-standing linguistic generalizations, (ii) make more specific predictions about exceptional cases, and (iii) reveal previously unnoticed patterns. The results show how mathematical models of sound structure can be brought into dialogue with both linguistic theory and computational learning, highlighting the broader potential of formal approaches to capture human linguistic knowledge.

Bio: Han Li is a fifth-year Ph.D. student in Linguistics department, specializing in computational linguistics under the supervision of Professor Jeff Heinz. Her research focuses on how sound patterns in language can be formally represented and computationally learned, bridging theoretical linguistics and computer science.

Location: Institute for Advanced Computational Science, Seminar Room

Zoom Meeting: https://stonybrook.zoom.us/j/94043459206?pwd=3ra47h8HghOFRfobRBjZaDMyTwialr.1
Meeting ID: 940 4345 9206
Passcode: 332717


Abstract:
Deep learning models have achieved remarkable success across a wide range of computer vision tasks, including image classification, semantic segmentation, etc. However, such success highly relies on a large amount of annotated data, which are expensive to obtain. Moreover, their performance often degrades when there exist distribution shifts between training and test data. Domain Adaptation overcomes these issues by transferring knowledge from a label-rich source domain to a related but different target domain. Despite its popularity, domain adaptation is still a challenging task, especially when the data distribution shifts are severe, while the target domain has no or few labeled data.

In this thesis, I develop four efficient domain adaptation approaches to improve model performance on the target domain. Firstly, inspired by the large-scale pretraining of Vision Transformers, I explore Transformer-based domain adaptation for stronger feature representation and design a safe training mechanism to avoid model collapse in the situation of a large domain gap. Secondly, I observe that source models have low confidences on the target data. To address this, I focus on the penultimate activations of target data and propose an adversarial training strategy to enhance model prediction confidences. Thirdly, I study using weak supervision from prior knowledge about target domain label distribution. A novel Knowledge-guided Unsupervised Domain Adaptation paradigm is devised, and a plug-in module is designed to rectify pseudo labels. Lastly, I step into the task of Active Domain Adaptation, where the labels of a small portion of target data can be inquired. I propose a novel active selection criterion based on the local context and devise a progressive augmentation module to better utilize queried target data. The robustness of domain adaptation approaches, in addition to accuracy, is critical yet under-explored. To conclude the thesis, I empirically study set prediction in domain adaptation using the tool of conformal prediction and conformal training.


Location: New Computer Science Bldg., Room 120
Zoom Link: https://stonybrook.zoom.us/j/92736258273?pwd=ipDdh1CTG6dRYmqa3ltUvooei8OfaT.1Meeting ID: 927 3625 8273
Passcode: 466399
CSE 600 Seminar Series | Fall 2025


Abstract: The first part of the presentation focuses on the fundamental role that failures play in the Ph.D. journey, highlighting how they offer invaluable learning experiences to build resilience, critical thinking, and adaptability. Instead of viewing failures as signs of inadequacy, they should be recognized as opportunities to learn, re-evaluate, and develop the persistence needed for success in a high-stakes research environment. In the second part of the presentation, we take a quick look at the evolution of distributed databases research at Stony Brook and then focus on different challenges associated with distributed transaction processing systems functioning in untrustworthy environments. Byzantine Fault-Tolerant (BFT) protocols have recently been extensively used by distributed transaction processing systems to establish consensus on the order of transactions. However, the proliferation of different BFT protocols has made it difficult to navigate the BFT landscape, let alone determine the protocol that best meets application needs. Moreover, as novel applications, modern hardware, and new cloud platforms arise, distributed transaction processing systems need to be designed with full-stack adaptivity in mind. This presentation discusses our vision for a reinforcement learning (RL)-based distributed transaction processing system that adjusts effectively in real time to dynamic fault scenarios and evolving workloads.

Bio: Mohammad Javad Amiri is an Assistant Professor in the Department of Computer Science at Stony Brook University. Before joining Stony Brook, he was a postdoctoral researcher in the Computer and Information Science Department at the University of Pennsylvania. He received his Ph.D. in Computer Science from the University of California, Santa Barbara. His research mainly lies at the intersection of data management and distributed systems, focusing on distributed transaction processing, consensus protocols, and blockchains.

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.

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.

AI and Edge Processing Co-Design for Radiation Detectors

Abstract: Artificial Intelligence (AI) offers exciting new opportunities for enhancing the performance of radiation detectors, ultimately leading to improved physics outcomes. Furthermore, with the explosive growth in data rates being seen by next-generation radiation detectors, deployment of AI algorithms at the edge by embedding intelligence within or near the detector front-end can be transformative. Such integration enables real-time data filtering, noise suppression, feature extraction, and adaptive control, while reducing downstream bandwidth and power consumption. This talk will cover three efforts that bring AI to the forefront of detector technology. First, we demonstrate how AI-based algorithms can be used for position reconstruction in virtual Frisch-grid (VFG) detectors by compensating for charge transport distortions and detector non- uniformities, leading to significantly enhanced fidelity in imaging of gamma-ray interactions. Second, we present a smart readout application specific integrated circuit (ASIC) that combines digital signal processing with co-designed artificial neural networks to enable on-chip regression and classification of detector signals, while meeting stringent constraints on accuracy, speed, and area. Finally, we introduce our recent efforts related to the development of electro-photonic processing architectures that integrate CMOS electronics and silicon photonics for near-sensor AI acceleration. These architectures aim to leverage cross-disciplinary co-design from algorithms to hardware, to achieve low latency and energy-efficient processing of detector data.

Biography: Dr. Prashansa Mukim is an early-career researcher in the Instrumentation Department at BNL, where she works on the design of front-end electronics for extreme environments and the development of co-design methodologies for novel processing modalities and beyond-CMOS technologies. Prior to joining BNL, she was a post-doctoral researcher at the National Institute of Standards and Technology (NIST) in Maryland, where she focused on characterizing the properties of CMOS circuits at cryogenic temperatures and applications of spintronic devices for neuromorphic computing. She received her Ph.D. in Electrical and Computer Engineering from the University of California, Santa Barbara, in 2021.

Location: CDS, Bldg. 725, Training Room

Join ZoomGov Meeting: https://bnl.zoomgov.com/j/1608585935?pwd=UemgEkqijfNf3vIJIGuOa2MdjsunaT.1

Meeting ID: 160 858 5935
Passcode: 076033

Join the Conversation: Share Your Thoughts about Learning, Academics, and AI

The world of college is changing fast, and Artificial Intelligence (AI) is at the center of it. We are part of the Institute on AI, Pedagogy, and the Curriculum with AAC&U, and we need to hear from the people AI affects most: you!

This is an open discussion for all students to share their honest experiences, their top concerns, and their best ideas about AI in our academic environment. We'll be diving into these key questions:
  • How can AI actually make learning better or easier? What opportunities do you see for using AI tools to enhance your assignments, research, or skills?
  • What are your biggest worries about AI? Is it about cheating, being graded fairly, or preparing for the job market? How is AI impacting your workload or stress levels?
  • What specific tools, workshops, or policies would help you use AI responsibly and successfully? (Think training, software, or clear rules.)
Date: Monday, December 1st
Time: 12:30pm-1:45pm
Location: West Campus - Location TBD
or
Date: Wednesday, December 3rd
Time: 10:30am-11:45am
Location: East Campus - HSC 2-154B

Please register in advance so we can confirm the room.

Note: Videos will not be shared publicly and comments will only be shared in aggregate.

Your voice matters. Come tell us how AI is affecting your studies, your stress, and your success!
  • Dr. Rose Tirotta-Esposito (Assistant Provost; Director of CELT)
  • Dr. Elizabeth Hewitt (Associate Professor in the Department of Technology and Society (DTS) in the College of Engineering and Applied Sciences)
  • Chris Kretz (Associate Librarian and Head of Academic Engagement at SBU Libraries)
  • Prof. Rajiv Lajmi (Assistant Professor in the School of Health Professions and Chair of Applied Health Informatics)
  • Dr. Matthew Salzano (Assistant Professor in the Department of Communication in the School of Communication and Journalism)
Abstract: As computing and society become increasingly inseparable, we confront a fundamental design challenge: creating AI systems where human-machine interactions authentically embody our diverse values while thoughtfully evolving our social relationships. The recursive nature of these interactions--where human behavior shapes technology design and technological affordances influence human behavior--presents both profound risks and transformative opportunities as we reimagine our collective digital future. What interaction patterns emerge when algorithmic systems become active participants in societal decision-making? How can we design human-AI collaboration that ensures algorithmic systems align with diverse community values while serving the public interest? Through Public Interest AI, we explore a Pluralistic Design Language that creates interaction models for value-sensitive algorithmic ecosystems, strengthening AI-society alignment in both technology design and policy development. Through collaborative interaction with communities, we create systems that augment human capabilities while embedding ethical principles into the sociotechnical design of AI itself--ultimately redefining possibilities at the intersection of technology, policy, and society. This talk will examine the challenges of designing meaningful human-AI systems within social contexts through real-world applications that combine value-sensitive interaction design, human-inspired computing, and societal development to create technologies that advance our shared commitment to the public good.

Bio: Neil Gaikwad is an Assistant Professor of Data Science and Computer Science at UNC Chapel Hill. Additionally, he serves on the Faculty Advisory Council of the UNC Parr Center for Ethics and is a Fellow at the MIT Dalai Lama Center for Ethics and Transformative Values. Neil holds a Ph.D. in Society-Centered AI from MIT and is an alumnus of Carnegie Mellon University's School of Computer Science. Neil's scholarship, published in prominent AI and HCI conferences, has been recognized with several prestigious honors, including the Facebook Research Fellowship, UIST Best Paper Honorable Mention, MIT Engineering Fellowship, Human Rights & Technology Fellowship, Graduate Teaching Award, and the Karl Taylor Compton Prize, MIT's highest student honor. He has been recognized as a Rising Star by both Stanford University and the University of Chicago. Translating research into real-world impact, Neil is a dedicated educator and mentor who has taught over 500 students throughout his career. He has guided more than 30 students to publish influential papers on AI fairness, secure prestigious fellowships, and contribute to shaping AI policy through public interest research. Neil is also the founder of the AI Policy Global Initiative, which has successfully brought together academia, industry, government, and communities to address critical challenges in AI governance and develop collaborative approaches to responsible AI.

Location: Old Computer Science, room 1310

As generative AI (GenAI) continues to reshape the educational landscape, educators must critically examine its implications for course design. How can we adapt our courses to ensure meaningful learning in a post-GenAI world? How can we harness its potential while mitigating risks to student learning? This seminar explores the evolving role of GenAI in higher education, emphasizing learner-centered teaching practices--such as backward design, transparency, and active learning--as essential strategies for navigating both the opportunities and challenges posed by GenAI. We will examine how GenAI disrupts traditional models of teaching and assessment, highlighting course design choices that intentionally promote deep learning and critical thinking in this new era.

Speaker Bio: Dr. Lourdes Alemán is an Associate Director at MIT's Teaching and Learning Lab (TLL). She earned her Ph.D. in Biology from MIT, studying RNA interference (RNAi) with Professor Phil Sharp. She later completed a postdoc in curriculum innovation with Professor Graham Walker's HHMI MIT Education Group. As a postdoc and research scientist, she helped develop software tools for teaching experimental design and data analysis, including collaborations with the MIT-Haiti Initiative. Before joining TLL, she worked at MIT's Open Learning, supporting MIT faculty in blended and online education. At TLL, Lourdes trains graduate students and postdocs in college-level teaching, advises faculty on classroom innovation, and previously designed and taught a hands-on biology module on novel antibiotic discovery for first-year students. She has served on university committees focused on mentoring and advising. Drawing from her experiences as a Cuban immigrant student, she developed MIT's first curriculum on growth mindset and co-founded Flipping Failure, a campus-wide initiative for students to share their stories of academic challenges and the strategies they have used to overcome them.

Event Website: bnl.gov/nysds
Dates: September 28-29, 2026
Location: SUNY Global Center, New York, NY
Co-hosts: Brookhaven National Laboratory, the Institute for Advanced Computational Science (IACS), and the AI Innovation Institute at Stony Brook University.

Join us for this premier annual conference that brings together researchers and thought leaders from academia, national labs, and industry to exchange ideas and foster cross-disciplinary collaboration centered on data-driven science and technology.

The theme of NYSDS 2026 is Transformational AI from Science to Society. This year's conference will focus on the ways in which artificial intelligence (AI), machine learning (ML) and robotics are impacting everything from our everyday lives to scientific endeavors. NYSDS2026 will feature the following main tracks:

  • Robotics and Embodied AI: advances in perception, control, learning and interaction for autonomous physical agents in real-world and scientific environments.

  • AI for Science: innovative applications ranging from the physical sciences to biology and medicine, and discussion of important ways in which AI is changing the nature of science.

  • AI for Energy: how energy is discovered and produced, how hazards are mitigated to ensure reliability of the power grid, and our search for new sources of critical minerals and materials.

  • AI for Risk Assessment: inventive uses of large amounts of data and the AI tools to assess and mitigate risks in national security, climate, and financial markets.

  • AI for Education: the ways in which education is being reimagined in the age of AI and the roadblocks to training the next generation of students.

Each track will include invited presentations, contributed talks, posters, and panel discussions.