AI Innovation Institute

This presentation will be hosted both in-person and via Zoom.

Friday, January 31, 11:00 AM to 12:00 PM

In-person: New Computer Science, Seminar Room 120

Zoom link: https://stonybrook.zoom.us/j/98063350315?pwd=WbeoksLl0vaQvaTU3bbVtJDDbpWrg2.1

Meeting ID: 980 6335 0315

Passcode: 452433

Educational objectives:

1. Explain how AI represents a Cognitive Revolution in academic medicine, redefining thefundamental limits of human cognition and knowledge work.
2. Differentiate between superficial AI adoption (innovation theatre) and truetransformationthrough AI-native institutional design.
3. Analyze how AI fundamentally reshapes clinical, research, and educational work-from dataentry to verification, recall to recognition, and hypothesis generation to evaluation-andidentify implications for redesigning academic health systems.

Speaker: Jiajie Zhang, Ph.D.,Dean, Professor, and Glassell Family FoundationDistinguished Chair in Informatics Excellence,D. Bradley McWilliams School of BiomedicalInformatics, UTHealth Houston

Location: MART Building, Room: 7M-0602 (7th Floor)

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 Ph.D. program or (2) receive permission from the instructors. Each seminar will consist of multiple short talks (around 15 minutes) by multiple students. Students can register for 1 credit for CSE656. Registered students must attend and present a minimum of 2 talks. Registered students must attend in person. Up to 3 absences will be excused. Everyone else is welcome to attend. The seminar will be taught by Prof. Chao Chen, chao.chen.1@stonybrook.edu.

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.

CSE 600 Seminar Series | Fall 2025


Abstract: Large reasoning models have demonstrated capabilities to solve competition-level math problems, answer deep research questions, and address complex coding needs. Much of this progress has been enabled by scaling of data: pre-training data to learn vast knowledge, fine-tuning data to learn natural language reasoning, and RL environments to refine that reasoning. In this talk, I will describe the current LLM reasoning paradigm, its boundaries, and the future of LLM reasoning beyond scaling. First, I will describe the state of reasoning models and where I think scaling can lead to some additional (though perhaps limited) successes. I will then shift to discussing more fundamental issues with models that scale will not resolve in the next few years. I will touch on four current limitations: outdated knowledge, generator-validator gaps, limited creativity, and poor compositional generalization. In all cases, fundamental limitations of LLMs or of supervised learning in general make these problems challenging, inviting future study and novel solutions beyond scaling.

Bio: Greg Durrett is an associate professor in the Department of Computer Science and the Center for Data Science at New York University. His research is broadly in the areas of natural language processing and machine learning. Currently, his group's focus is on reasoning about knowledge in text, verifying correctness of generation methods, and studying how to make progress on problems that defy LLM scaling. He is a 2023 Sloan Research Fellow and a recipient of a 2022 NSF CAREER award. He has served in numerous roles for ACL conferences, recently as a member of the NAACL Board since 2024 and as Senior Area Chair for ACL 2025 and EMNLP 2025. He received his BS in Computer Science and Mathematics from MIT and his PhD in Computer Science from UC Berkeley, where he was advised by Dan Klein.

Abstract: Survival prediction using whole slide images (WSIs) can be formulated as a multiple instance learning (MIL) problem. However, existing MIL methods often fail to explicitly capture pathological heterogeneity within WSIs, both globally -- through long-tailed morphological distributions, and locally through -- tile-level prediction uncertainty. Optimal transport (OT) provides a principled way of modeling such heterogeneity by incorporating marginal distribution constraints. Building on this insight, we propose OTSurv, a novel MIL framework from an optimal transport perspective. Specifically, OTSurv formulates survival predictions as a heterogeneity-aware OT problem with two constraints: (1) global long-tail constraint that models prior morphological distributions to avert both mode collapse and excessive uniformity by regulating transport mass allocation, and (2) local uncertainty-aware constraint that prioritizes high-confidence patches while suppressing noise by progressively raising the total transport mass. We then recast the initial OT problem, augmented by these constraints, into an unbalanced OT formulation that can be solved with an efficient, hardware-friendly matrix scaling algorithm. Empirically, OTSurv sets new state-of-the-art results across six popular benchmarks, achieving an absolute 3.6% improvement in average C-index. In addition, OTSurv achieves statistical significance in log-rank tests and offers high interpretability, making it a powerful tool for survival prediction in digital pathology.

Speaker: Qin Ren

Location: https://stonybrook.zoom.us/j/97458849045?pwd=SREklaxa7EFhKaK6TeRXgQPH64vrQJ.1&jst=2

Abstract: Spectroscopy and imaging are two primary tools for probing material structures. However, the discovery of trends that guide the design of improved materials is often hindered by intertwined physical interactions or significant experimental noise. In this talk, I will present machine learning approaches that address both challenges. The first part focuses on the interpretation of X-ray absorption spectroscopy (XAS). We developed a controlled projection algorithm, RankAAE, which disentangles coupled structural descriptors in complex datasets and reveals analysis rules for inferring new structural information visually from spectra. The second part targets transmission electron microscopy (TEM) imaging of material structures. We developed a machine learning model capable of denoising extremely noisy images, while demonstrating strong out-of-distribution generalization. I will describe the construction of these models and demonstrate their effectiveness through representative scientific case studies.

Bio: Dr. Xiaohui Qu is a Staff Scientist in the Theory and Computation Group at the Center for Functional Nanomaterials (CFN), Brookhaven National Laboratory. His research focuses on developing interpretable machine learning and data analytics methods for materials science, with an emphasis on extracting structural insights from X-ray absorption spectroscopy and transmission electron microscopy. Dr. Qu earned his B.S. in Environmental Engineering and Ph.D. in Environmental Science from Shandong University, China, followed by postdoctoral research in Physics at Nanyang Technological University, Singapore, in Chemistry at Universidade Nova de Lisboa, Portugal, and in Materials at Lawrence Berkeley National Laboratory.

Location: IACS Seminar Room


Event Details & Calendar Link (includes zoom info): https://calendar.stonybrook.edu/site/iacs/event/iacs-seminar-speaker--xiaohui-qu-brookhaven-national-lab/

The Tiger Team open house will be Monday, September 20 at high noon by Zoom:

 https://stonybrook.zoom.us/j/99577242078?pwd=T3IzekV6MkFZQXBrMXBSRDNNZ1lLdz09