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.

#1 How to train your Scientific Chatbot by Alexandr Prozorov, Post-Doctoral Research Associate


Abstract: RHIC is closing its 25-year run with ~1 EB of data and decades of hard-won know-how that risk drifting into obscurity. The RHIC Data & Analysis Preservation Plan (DAPP) pilots an AI assistant that lets physicists talk to RHIC in natural language--searching internal notes, code, workflows, and docs, and pointing to runnable, containerized analyses. Built on Retrieval-Augmented Generation(RAG) with a Model Context Protocol orchestration layer, the system indexes heterogeneous, experiment-specific content and enforces role-aware access
for public vs. collaboration-restricted materials. Takeaway: domain-adapted AI can turn a legacy exabyte into reproducible answers, training assets, and new discovery paths.

Biography: Alexandr Prozorov is a postdoc from Czech Technical University in Prague working in STAR experiment. Fascinated by AI

#2 Quantum AI: Atoms, Cavities and Learning by Raman Kumar, Post-Doctoral Research Associate, Instrumentation Department

Abstract: The Instrumentation Department (IO) in the Discovery Technologies directorate at BNL is engaged in exploring various aspects of quantum systems research. One of the main goals of our group's effort is in developing neutral atom-cavity array platforms for remote entanglement generation and distributed quantum processing. This platform promises to herald truly scalable quantum computing systems and open new paradigms for networking and sensing. In this talk, I will explain our group's research and the role AI is playing in unlocking new insights with two examples. The first application of AI is in fabrication process prediction of micro-cavity structures. The second application revolves around role of AI in quantum error detection and correction in modern quantum computing systems.

Biography: Dr. Raman Kumar is a postdoctoral research associate in the IO department at BNL working with Dr./Prof. Sebastian Will (Columbia U.). Kumar obtained his Ph.D. degree in Electrical and Computer Engineering from the University of Illinois Urbana-Champaign. Prior to joining BNL in Nov 2024, Kumar worked as a postdoc at the City College in New York working on topological photonic quantum sensing using NV centers in diamond. Kumar and Will combined have an extremely wide moat and expertise in a variety of different areas which include Ultra cold atoms and molecules, quantum optics, quantum condensed matter, nanofabrication, semiconductor devices and advanced electromagnetics. Their areas of research interest include scalable quantum computing, communications and sensing, all enabled by AI.

Location: CDS, Bldg. 725, Training Room

Join ZoomGov Meeting https://bnl.zoomgov.com/j/1607892208?pwd=MSjxN5btSeToZsQMwEQzCCbBo5h58V.1

Meeting ID: 160 789 2208
Passcode: 753871

You are cordially invited to attend the biweekly Brookhaven AI Mixer (BAM). BAM includes three short talks 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.

Tuesday, January 7, 2025, 12:00 pm -- CDS, Bldg. 725, Training Room

Speakers

Chuntian Cao, CDS AID - Neural Network Potential (NNP) for Battery Electrolytes

Yeonju Go, NPP Physics - Generative AI for High-Energy Nuclear Physics

Gilchan Park, CDS AID - Graph RAG: Indexing, Retrieval and Generation

Join ZoomGov Meeting: https://bnl.zoomgov.com/j/1615289117?pwd=Hqkbj9itxWrFnkhZ8rQXHPInO2gxdF.1

Meeting ID: 161 528 9117
Passcode: 991382

Abstract: Computational pathology has revolutionized cancer diagnosis and research through the analysis of digitized whole slide images (WSIs). However, their giga-pixel size creates two intertwined bottlenecks: computational inefficiency, as prohibitive GPU memory makes standard end-to-end (E2E) training infeasible, and label inefficiency, as expert annotation is tedious and expensive. This dissertation confronts both challenges through novel architectures, training paradigms, and self-supervised learning methods for efficient WSI analysis.
To improve computational efficiency, this dissertation first introduces a locally supervised learning paradigm that enables E2E training on entire WSIs by partitioning a network into gradient-isolated modules, circumventing the memory bottleneck of backpropagation. Second, it presents Prompt-MIL, a parameter-efficient fine-tuning framework training only a few prompts to guide large pre-trained models, reducing trainable parameters, memory, and training time. Third, this work proposes 2DMamba, the first intrinsic Mamba architecture that preserves the crucial 2D spatial structure of images, overcoming the spatial discrepancy in 1D models. Fourth, it presents Locally Bi-directional Mamba (LBMamba), whose hardware-aware local backward scan integrates bi-directional scanning into a single forward pass, improving the throughput-performance trade-off of Mamba models.
To improve label efficiency, this dissertation proposes a precise location based matching strategy for self-supervised dense contrastive learning, which allows a local patch in one augmented view to match multiple overlapping patches in another, producing more accurate correspondences and superior features for dense prediction tasks like segmentation and detection. Additionally, to better scale multi-channel cell imaging modalities, this dissertation introduces ChannelSFormer, a channel-agnostic vision transformer that disentangles spatial and channel-wise reasoning through divided attention and channel class token, enabling effective representation learning across variable channel configurations in both self-supervised and supervised settings.
In summary, this dissertation presents a holistic investigation into the efficiency bottlenecks in computational pathology. Through these combined contributions in model architecture, training paradigms, and self-supervised learning, this work establishes a more scalable, efficient, and powerful computational framework for analyzing giga-pixel pathology images.

Speaker: Jingwei Zhang

Location: NCS 220

Zoom: https://stonybrook.zoom.us/j/93175806292?pwd=xbtxnQyYGoThz5B1DyJxJxPF9lxiJE.1
Meeting ID: 931 7580 6292
Passcode: 314091


New York Scientific Data Summit (NYSDS) is a premier annual conference that brings together researchers and thought leaders from academia, national labs and industry to exchange ideas and foster collaboration focused on data-driven science and technology. Co-hosted by Brookhaven National Laboratory and the Institute for Advanced Computational Science (IACS) at Stony Brook University, NYSDS 2025 will take place on September 11-12, 2025, in the SUNY Global Center in New York City.

NYSDS 2025 will spotlight artificial intelligence (AI), machine learning (ML) and robotics - fields currently at a pivotal point with transformative impacts on science and technology. From accelerating computationally demanding simulations to discerning signals from noisy data, AI/ML has become an integral part of the scientific workflows. Despite many advances, challenges remain to ensure that AI/ML applications are reliable, explainable and trustworthy.

Robotics, a growing field that couples AI with physically actuated mechanical bodies, has seen increased interest in areas spanning science, technology and manufacturing. The need for real-time decision-making and control, along with the intricate morphology of robots, makes robotics an intriguing application of AI, advanced computing and optimization.


This NYSDS 2025 is open to the public. To be eligible to attend, all participants must register online by August 30, 2025. For questions or assistance with registering, please contact the Summit Coordinator.

Register here.


Join the Office of Educational Effectiveness' upcoming workshop on the transformative potential of AI tools to enhance program assessment. Learn how to leverage AI to create targeted learning objectives, detailed rubrics, and precise benchmarks that will elevate the quality and effectiveness of your program assessment process. Join in-person on Oct. 17 at 10:30 am or virtually on Oct. 21 at 12 pm.

Register in advance: https://calendar.stonybrook.edu/site/office-educational-effectiveness/event/leveraging-ai-in-assessment-zoom/
Tired of drowning in grading? Discover how Gradescope can reduce grading time by 30%-50% for exams, homework, and online assignments. In this 90-minute session, learn to grade efficiently with AI-assisted tools, update rubrics easily, manage paperless submissions, and use analytics to identify learning gaps.

This session will go over:

  • Grade items simultaneously: Use AI-assisted grading to group identical student answers and grade them all at once.

  • Edit rubrics on the fly: Adjust your rubric points at any time, and let Gradescope automatically update previously graded papers retroactively.

  • Go paperless: Effortlessly manage student-submitted PDFs or instructor-scanned exams without the clutter.

  • Spot learning gaps: Use instant analytics dashboards to see exactly which concepts your students mastered and where they struggled.


Register here by 09/13 to attend the Zoom training session.
University Libraries Present: Analyzing quantitative data can feel overwhelming without the right tools. In this workshop, SBU Libraries' Data Literacies Lead, Ahmad Pratama will show you how to master the basics of exploratory data analysis for quantitative data using Python. This workshop covers several techniques to help you uncover patterns and insights in your datasets.

Online RSVP via link: https://stonybrook.zoom.us/meeting/register/vEPycmDrQoGjFqkmsYHgxw
The overall purpose of this seminar is to bring together people with interests in Computer Vision theory and techniques and to examine current research issues. This course will be appropriate for people who already took a Computer Vision graduate course or already had research experience in Computer Vision. To enroll in this course, you must either: (1) be in the PhD program or (2) receive permission from the instructors.

Each seminar will consist of multiple short talks (around 10 minutes) by multiple people. Students can register for 1 credit for CSE 656. Registered students must attend and present a minimum of 2 or 3 talks. Everyone else is welcome to attend. Fill in https://forms.gle/pCVXovgfMfQwGqG38 to subscribe to our mailing list for further announcement.
Join librarian Christine Fena for an interactive workshop that invites you to explore AI tools firsthand, not just as users, but as critical investigators. Through playful experimentation and collaborative discovery, you'll uncover inherent biases, probe algorithmic flaws, and gain a deeper understanding of AI's limitations and societal impacts.

Location: Melville Library, Central Reading Room, Lab B

https://library.stonybrook.edu/library-events/critiquing-ai/

Join the Department of Biomedical Informatics for an exclusive fall semester programming bootcamp. Discover essential programming, data analytics, and machine learning skills crucial for biomedical informatics. Special topics such as Bioinformatics and NLP will be briefly covered.

Gain hands-on programming experience and discover diverse career opportunities in biomedical informatics.

Don't miss this chance to excel in healthcare data analytics and shape the future of the industry.

https://bmi.stonybrookmedicine.edu/Bootcamp/Bootcamp-Fall-2025

Location: NCS 120