Abstract:
Large language models (LLMs) have transformed the way humans write code, bringing unprecedented automation to software development. In this talk, I will first provide an overview of my research on enhancing LLMs' code intelligence, optimizing each step of the development pipeline towards more complex software engineering tasks. I will then delve into my key contributions, focusing on how to equip LLMs with a deeper, more comprehensive understanding of software programs. Finally, I will discuss the future of AI-driven software engineering, envisioning a new era of automation that is more reliable, intelligent, and cost-efficient.

Bio:
Yangruibo (Robin) Ding is a Ph.D. candidate in the Department of Computer Science at Columbia University. His research is at the intersection of Software Engineering and Machine Learning, focusing on developing large language models (LLMs) for code. He trains LLMs to generate, analyze, and refine software programs and constructs benchmarks to systematically evaluate LLMs in solving software engineering tasks. He also studies how to improve LLMs' reasoning capability to tackle complex programming tasks, such as debugging and patching. His interdisciplinary research has been published in top-tier conferences of software engineering, programming languages, natural language processing, and machine learning. He won an ACM SIGSOFT Distinguished Paper Award, an IEEE TSE Best Paper Runner-up, and received an IBM Ph.D. Fellowship.
Location:
NCS 120

Visual Analytics and Machine Learning for Biomedical Imaging Diagnosis

 

Arie Kaufman

 

We present an integrated approach using visual analytics and machine learning (ML) to diagnose abnormalities in 3D radiological imaging and biological microscopes. The primary example will involve 3D virtual pancreatography (VP), a novel visualization-ML procedure and application for non-invasive diagnosis and classification of pancreatic lesions, the precursors of pancreatic cancer. Currently, non-invasive screening of patients is performed through visual inspection of 2D axis-aligned CT images, though the relevant features are often not clearly visible nor automatically detected. VP is an end-to-end visual diagnosis system that includes an ML-based automatic segmentation of the pancreatic gland and the lesions, a semi-automatic approach to extract the primary pancreatic duct, an ML-based automatic classification of lesions into four prominent types, and specialized 3D and 2D exploratory visualizations of the pancreas, lesions and surrounding anatomy. We combine volume rendering with pancreas- and lesion-centric visualizations and measurements for effective diagnosis. We designed VP through close collaboration and feedback from expert radiologists, and evaluated it on multiple real-world CT datasets with various pancreatic lesions and case studies examined by the expert radiologists. Other applications include virtual colonoscopy, COVID-19, pathology, brain neurites, etc.


Biography: Arie Kaufman is Distinguished Professor and formerChair of the Department of Computer Science at Stony Brook University, where he is also Director of the Center for Visual Computing (CVC), and Chief Scientist at the Center of Excellence in Wireless and Information Technology (CEWIT). 

He received his PhD in Computer Science at Ben-Gurion University of the Negev in 1977.   He is known for his work in visualization, graphics, virtual reality, user interfaces, multimedia, and their applications, especially in bio-medicine. He is especially well known for his work on the 3-dimensional virtual colonoscopy, a revolutionary low-risk technique for colon cancer screening, and for pioneering the use of Graphics Processing Units (GPUs) and GPU-clusters. In 2012, he presided over the development and opening of the Reality Deck, the largest virtual reality display in the world, at Stony Brook University.

Kaufman was the founding Editor in Chief of IEEE Transactions on Visualization and Computer Graphics (TVCG), co-founded the IEEE Visualization Conference and Volume Graphics series, and is currently the director of IEEE Computer Society Technical Committee on Visualization and Graphics. He is an IEEE Fellow, ACM Fellow, winner of many awards, including the IEEE Visualization Career Award, and member of the European Academy of Sciences.



Steven Skiena is inviting you to a scheduled Zoom meeting.

Topic: AI Seminar: Arie Kaufman
Time: Apr 21, 2021 10:00 AM Eastern Time (US and Canada)

Join Zoom Meeting
https://stonybrook.zoom.us/j/96017498640?pwd=SE0rdHB6ZVlCM2ZpY2RnRUxyVnR3Zz09

Please join us for the next CSE 600 Seminar this Friday, October 11th, at 2:30pm in New Computer Science 120 given by Assistant Professor Mohammad Javad Amiri. Abstract: Today's distributed transaction processing systems must deal with untrustworthy environments where multiple mutually distrustful entities communicate with each other, and maintain data on untrusted infrastructure. 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 smart contracts, modern hardware, and new cloud platforms arise, future-proof distributed transaction processing systems need to be designed with full-stack adaptivity in mind. This talk presents our vision for a reinforcement learning (RL)-based distributed transaction processing system that adjusts effectively in real-time to changing fault scenarios and workloads.

AI on Campus: Your Thoughts, Your Future

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.)

Dates/Times:

  • Wednesday, 2/4 at 2pm

  • Thursday, 2/5 at 12pm

Please register in advance for the Zoom link.

Can't Make It? Share Your Feedback!

Don't worry if you can't attend! You can still share your thoughts via video in our AI Zoom Room or via email: rose.tirotta-esposito@stonybrook.edu.

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)

https://stonybrook.zoom.us/j/99820812332?pwd=c05BSTVLNmw3L04yZjdEcG5pem1OZz09 Speaker: Alexei Koulakov of Cold Spring Harbor Laboratory Brain evolution as a machine learning problem We have entered a golden age of artificial intelligence research, driven mainly by the advances in ANNs over the last decade or so. Applications of these techniques--to machine vision, speech recognition, autonomous vehicles, machine translation and many other domains--are coming so quickly that many observers predict that the long-elusive goal of Artificial General Intelligence (AGI) is within our grasp. However, we still cannot build a machine capable of building a nest, stalking prey, or loading a dishwasher. I will describe several projects, ranging from theories of evolution of neural development to the perception of smells, in which we are attempting to understand the algorithms that the nervous system is using to solve some of these challenging problems.

Abstract: Materials used in extreme environments, such as high temperatures, irradiation, and stress, often fail due to rapid defect generation and microstructural evolution, and traditional approaches cannot explore the vast design space needed for next-generation alloys. I will present a machine learning framework powered by massive computing that links individual atomic motion to microstructural evolution. Neural network kinetics models trained on first-principles data map vacancy barrier spectra and capture correlated diffusion in multicomponent alloys, revealing design strategies to suppress radiation damage. At larger scales, simulations uncover dislocation patterning and distinguish between confined and extended slip bands, offering new insight into collective dislocation motion and deformation instabilities. By integrating AI-driven modeling, large-scale computing, and experimental validation, my research goal is to accelerate the discovery of damage-tolerant materials and advance fundamental understanding of defect physics in extreme environments.

Speaker Bio: Penghui Cao is an Associate Professor in Mechanical and Aerospace Engineering at the University of California, Irvine, with a joint appointment in Materials Science and Engineering. He received his PhD in mechanical engineering from Boston University and subsequently worked as a Postdoctoral Associate in the Department of Nuclear Science and Engineering at the Massachusetts Institute of Technology from 2014 to 2018. Dr. Cao's research focuses on understanding the fundamental mechanisms that govern radiation responses and microstructure evolution in materials, and on developing advanced alloys for high-performance nuclear energy systems. His lab advances computational and modeling algorithms, integrates advanced manufacturing techniques to tailor microstructures, and leverages state-of-the-art electron microscopy to characterize and assess underlying mechanisms. He is the recipient of the DOE Early Career Research Program Award and the UCI Samueli School's Mid-Career Award for Faculty Excellence in Research.

Location: Institute for Advanced Computational Science, Seminar Room

*This seminar will be held in-person and online. Zoom link below*

Join Zoom Meeting: https://stonybrook.zoom.us/j/96410717491?pwd=3WGMwbLYNMSbI2IF160VXkvv2JmCQ1.1

Meeting ID: 964 1071 7491
Passcode: 399333

Abstract: Many unresolved legal questions over LLMs and copyright center on memorization: whether specific training data have been encoded in the model's weights during training, and whether those memorized data can be extracted in the model's outputs. While many believe that LLMs do not memorize much of their training data, recent work shows that substantial amounts of copyrighted text can be extracted from open-weight models. However, it remains an open question if similar extraction is feasible for production LLMs, given the safety measures these systems implement. We investigate this question using a two-phase procedure: (1) an initial probe to test for extraction feasibility, which sometimes uses a Best-of-N (BoN) jailbreak, followed by (2) iterative continuation prompts to attempt to extract the book. We evaluate our procedure on four production LLMs -- Claude 3.7 Sonnet, GPT-4.1, Gemini 2.5 Pro, and Grok 3 -- and we measure extraction success with a score computed from a block-based approximation of longest common substring (nv-recall). With different per-LLM experimental configurations, we were able to extract varying amounts of text. For the Phase 1 probe, it was unnecessary to jailbreak Gemini 2.5 Pro and Grok 3 to extract text (e.g, nv-recall of 76.8% and 70.3%, respectively, for Harry Potter and the Sorcerer's Stone), while it was necessary for Claude 3.7 Sonnet and GPT-4.1. In some cases, jailbroken Claude 3.7 Sonnet outputs entire books near-verbatim (e.g., nv-recall=95.8%). GPT-4.1 requires significantly more BoN attempts (e.g., 20X), and eventually refuses to continue (e.g., nv-recall=4.0%). Taken together, our work highlights that, even with model- and system-level safeguards, extraction of (in-copyright) training data remains a risk for production LLMs.

Speaker: Xinyue

Location: CS2311
Please join us on Zoom for our next event in the Fall 2025 Stony Brook School of Nursing Research Seminar Series presented by our Office of Research and Innovation.

Topic: Responsible Artificial Intelligence: Promoting Health Equity for All

Speaker: Michael P. Cary, Jr., PhD, RN, FAAN.

Dr. Cary is a tenured Associate Professor at the Duke University School of Nursing. Dually trained as a health services researcher and applied health data scientist, Dr. Cary utilizes AI to investigate health disparities in aging populations, thereby promoting health equity and improving healthcare delivery. He co-directs HUMAINE™, an initiative dedicated to equipping nurses and healthcare professionals with the knowledge and skills necessary for the responsible use of AI in clinical practice.

Register: https://web.cvent.com/event/057978a5-a770-4de5-aca5-ad00287e4902/summary