Le Hou Dissertation Defense: Deep Learning for Digital Histopathology across Multiple Scales

ABSTRACT: Histopathology is the study of tissue changes caused by diseases such as cancer. It plays a crucial role in disease diagnosis, survival analysis and development of new treatments. Using computer vision techniques, I focus on multiple tasks for automated analysis in digital histopathology images, which are challenging because histopathology images are heterogeneous and complex, due to the large variation of hundreds of cancer types in gigapixel resolution. In this thesis, I show how histopathology image analysis tasks can be viewed in three scales: Whole Slide Image (WSI)-level, patch-level and cellular-level, and present my contributions in each resolution level.

BIO: WSI-level analysis such as classifying WSIs into cancer types is challenging, because conventional classification methods such as off-the-shelf deep learning models cannot be applied directly on gigapixel WSIs due to computational limitations. I contribute a patch-based deep learning method that classifies gigapixel WSIs into cancer types and subtypes with close-to-human performance. This method is useful for computer-aided diagnosis. At patch-level, I contribute a novel method for histopathology image patch classification. On the task of identifying Tumor Infiltrating Lymphocyte (TIL) regions, the prediction result of this method correlates to the survival rate of patients. At cellular-level, I contribute novel methods for nucleus classification and roundness regression, which are interpretable features for histopathology studies. With this method, I generated a large-scale dataset of segmented nuclei, in WSIs from a large publicly available digital histopathology image dataset, to help advance histopathology research.

Ready for Round Two? Dr. Zach Justus Returns! Join us on October 30, 2025, in the SBU Hilton Garden Inn. Buckle up your curiosity for a high-energy morning session with the engaging Dr. Zach Justus as we navigate how GenAI is reshaping not just how we teach, but what we teach. With real talk and questions that hit hard like Are students learning what we think we're teaching? This is your chance to rethink your program's true destination. Whether you're looking to pick up a few takeaways or chart a new direction entirely, this symposium is your space to explore, reflect, and act.

Check-in and breakfast will begin at 8:30 a.m. in order to begin our program promptly at 9:00 a.m.

Registration will remain open until October 15 or until the event reaches capacity. If closed, please contact educationaleffectiveness@stonybrook.edu to request a spot on the waitlist.

Abstract: Recent progress in large language and vision models demonstrates how far we can go by scaling with vast internet-scale data. In contrast, physical AI, agents that perceive and act in the real world, still lags far behind. Today, both academia and industry primarily pursue generalizable physical AI by scaling up: collecting large-scale action-video datasets or training world models that enable interaction through learned environments. However, this paradigm is inherently inefficient and will soon reach a data ceiling. In this talk, I argue for a shift from scaling up to scaling out. I introduce reality world simulators, a new paradigm that converts real-world videos into diverse, interactive simulation environments. Instead of relying on more data collection, this approach expands data through structured reconstruction and recomposition, enabling both higher data efficiency and physically grounded interaction. I will present a three-pronged approach: 1) Scaling out via Digital Twins: reconstructing controllable, interactive environments from monocular videos to support diverse agent exploration. 2) Scaling out via Digital Cousins: disentangling scene structure into compositional elements to generate large-scale variations of real-world environments. 3) Scaling out via Embodied Humans: incorporating realistic human dynamics to improve safety and social compliance in robot learning. Finally, I will outline a roadmap toward building generalizable and safe physical AI systems for open-world deployment.

Bio: Dr. Wayne Wu is a postdoctoral researcher at UCLA Computer Science, working closely with Bolei Zhou, and collaborating with Trevor Darrell (UC Berkeley EECS) and Jiaqi Ma (UCLA CEE). He received his Ph.D. in Computer Science and Technology from Tsinghua University in June 2022 and was previously a visiting Ph.D. student at Nanyang Technological University. He also spent seven years in industry, where he led the research and development of products that reached more than 10 million end users worldwide. His research lies at the intersection of computer vision, robotics, and computer graphics. He focuses on developing infrastructure and methods to scale physical AI, enabling robots to work reliably and safely in the open world. He has published over 50 papers at top-tier venues including CVPR, ICCV, ICLR, NeurIPS, and ICRA, with over 9,500 citations and 10,000 GitHub stars. His work has received a CVPR Best Paper Candidate and multiple Oral, Spotlight, and Highlight presentations. He was also honored with the 2025 UCLA Chancellor's Award for Postdoctoral Research, recognizing the best postdocs at UCLA, and he was the only awardee from the School of Engineering. He serves as an Area Chair at CVPR 2026.

Location: NCS 120
Abstract: Drawing on group-theoretic and information-theoretic foundations, we propose information lattice learning (ILL) as a general framework to learn rules of a signal (e.g., an image or a probability distribution). In our definition, a rule is a coarsened signal used to help us gain one interpretable insight about the original signal. To make full sense of what might govern the signal's intrinsic structure, we seek multiple disentangled rules arranged in a hierarchy, called a lattice. Compared to representation/rule-learning models optimized for a specific task (e.g., classification), ILL focuses on explainability: it is designed to mimic human experiential learning and discover rules akin to those humans can distill and comprehend. We will detail the mathematical foundations and algorithms of ILL, and illustrate how it addresses the fundamental question what makes X an X by creating rule-based explanations designed to help humans understand. Our focus is on explaining X rather than (re)generating it. We show ILL's efficacy and interpretability on benchmarks and assessments, as well as a demonstration of ILL-enhanced classifiers achieving human-level digit recognition using only one or a few MNIST training examples (1-10 per class). We present applications in knowledge discovery, using ILL to distill music theory from scores and chemical laws from molecules and further revealing connections between them. We close with some early work on understanding the principles that govern scattering amplitudes in Super Yang-Mills theory, rather than just predicting them.

Biography: Lav R. Varshney is the Della Pietra Infinity Professor and inaugural director of the AI Innovation Institute at Stony Brook University. He is co-founder and CEO of Kocree, Inc., a startup company building novel human-controllable AI for discovery and creativity, and chief scientist of Ensaras, Inc., a startup company focused on AI and wastewater treatment. He holds appointments at RAND Corporation and at Brookhaven National Laboratory. He was previously on the faculty of the University of Illinois Urbana-Champaign, a visiting scholar at Northwestern's Kellogg School of Management, a principal research scientist at Salesforce Research AI, and a research staff member at IBM Research. He is a former White House staffer, having served on the National Security Council staff as a White House Fellow, where he contributed to national AI and wireless communications policy. His research interests include information theory and artificial intelligence. He received his B.S. degree from Cornell University and his S.M. and Ph.D. degrees from the Massachusetts Institute of Technology.

Location: Room 102

Abstract: Pre-trained diffusion and flow matching models have made visual generation remarkably powerful, enabling high-fidelity synthesis of images and videos from natural language prompts. However, their behavior is still largely dictated by the pre-training data distribution and likelihood objective, which do not directly encode downstream desiderata such as fine-grained semantic alignment, controllability, or realism. This gap motivates post-training: starting from a base generator and further optimizing it with additional supervision signals derived from human or reward model preferences.This work presents post-training for visual generative models through two complementary case studies. First, Hummingbird addresses the problem of fine-grained contextual alignment in image-text-to-image generation. We introduce a multimodal context evaluator that scores the consistency between rich contextual descriptions and generated images, capturing fine-grained alignment beyond global CLIP similarity. By directly backpropagating these differentiable rewards through the diffusion sampler, Hummingbird substantially improves semantic faithfulness while preserving high visual quality.
Second, PISCES tackles post-training for text-to-video generation, where alignment is inherently semantic-spatio-temporal. We show that naive VLM-based rewards suffer from distributional mismatch and token-level misalignment, leading to reward hacking and suboptimal optimization. PISCES introduces a bi-objective, Optimal Transport (OT)-aligned reward module: distributional OT using Neural Optimal Transport to align text and video embedding distributions, and discrete, partial OT over a spatio-temporal cost matrix to capture semantic alignment at the token level. These rewards are integrated into both direct backpropagation and GRPO-style optimization to post-train state-of-the-art text-to-video generators. Together, Hummingbird and PISCES provide a unified view of how carefully designed visual reward models, coupled with OT-based representation alignment, can reliably improve the downstream behavior of pre-trained image and video generators.

Speaker: Minh Quan Le

Location: NCS 220

Zoom: https://stonybrook.zoom.us/j/94798224254?pwd=CFraer25qnpORbJ14aAVHRwaSJOjJM.1

What can you learn from over seven years' worth of Twitter bios? Steven Skiena, Distinguished Teaching Professor of Computer Science and Director of SBU's Institute for AI-Driven Discovery and Innovation, will tell us.

Presenting work done with collaborators Jason Jones, Dakota Handzlik, and Xingzhi Guo, Dr. Skiena will discuss what the team learned about how people portray themselves on social media through their political identities and job status. He'll also show us what you can predict about a person based on their self-description.

If you have a disability and are requesting accommodations in order to fully participate in this event, please email libraryevents@stonybrook.edu or call 631-632-7100.

Register now: https://library.stonybrook.edu/library-events/stem-speaker-series-measuring-self-identity/

AI + Music Seminar - The meeting will consist of introductions and organizational discussions, aimed at understanding participants' interests. We'll discuss what the seminars can focus on going forward.


Dates: 

Wednesday, March 3, 2021 - 6:00pm to 7:30pm

Location: 

Zoom - contact events@cs.stonybrook.edu for Zoom info.

Event Description: 

Women in Computer Science (WiCS), the Society of Women Engineers (SWE), and the Stony Brook Robotics Team (SBRT) are collaborating to host an event called Inspiring Women in STEM Academia: A Community Dialogue to address the lack of female representation in STEM academia. 
 

All are invited to attend so they may gain a better understanding of the challenges faced by their female colleagues and hear perspectives on how they can offer support in the workplace. Given the shockingly disproportionate number of female professionals in STEM academia, we feel that this event would be extremely beneficial for male faculty to listen to and amplify their voices.

It will begin with a discussion panel consisting of Stony Brook professors and faculty who will provide valuable insight into the issue. From there, we will split into smaller discussion groups where student and faculty attendees will be able to voice their opinions, hear about the thoughts/experiences of others, and participate in an engaging discussion with panelists.

The event will be held on March 3rd from 6:00 - 7:30 PM on Zoom.
 

The following Stony Brook faculty will be panelists:

Dr. Aruna Balasubramanian - Computer Science Professor, WiCS Advisor, WPhD Advisor

Dr. Xinwei Mao - Civil Engineering Assistant Professor

Urszula Zalewski - Director of Experiential Learning, Career Center Advisor (Healthcare)

Dr. Heather Lynch - Ecology and Evolution Professor, Lynch Lab for Quantitative Ecology

Karen Kernan - URECA Director, Simons Summer Research Program Director

Dr. Eszter Boros - Chemistry Assistant Professor, Boros Lab

Dr. Maria Nagan - Chemistry Lecturer, Nagan Research Lab

Join us to share your thoughts about teaching, learning, and AI!

The landscape of higher education is rapidly evolving with the integration of Artificial Intelligence (AI). Through the Institute on AI, Pedagogy, and the Curriculum with AAC&U, we are exploring ways that we can better address AI in teaching and learning. We want to hear your experiences, your concerns, and your ideas.

This is an open discussion for all faculty and staff to share their perspectives on the opportunities and challenges AI presents in our academic environment.

We'll be exploring critical questions like:

  • In the age of AI, what are the opportunities you see for enriching the classroom and curriculum? How can it enhance student learning or your professional practice?

  • What are the most significant challenges and concerns that AI raises for you regarding academics, student integrity, or your workload?

  • What resources (tools, training, technical support, policy guidance, etc.) do you need to feel confident and successful in the age of AI?

Dates/Times:

  • Tuesday, 2/3 at 2pm

  • Friday, 2/6 at 9:30am

Please register in advance for the Zoom link.

Can't Make It? Share Your Feedback!

We understand schedules are tight. If you cannot attend the live discussion, you can still share your thoughts! Join our AI Zoom Room to share your thoughts via video recording or email rose.tirotta-esposito@stonybrook.edu with your comments and ideas.

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

Your input is vital. From pedagogy to assessment, your insights will be critical. We look forward to a thoughtful and productive conversation!

  • 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)