CSE 600 Seminar Series | Fall 2025
Speaker: Jiawei (Joe) Zhou
Speaker: Jiawei (Joe) Zhou
University Libraries Present: AI as Author? New Considerations When Evaluating Sources.
In this workshop, librarian Christine Fena will review some ways AI is being integrated into published work within the worlds of news and scholarly publication, and discuss how this might impact how to evaluate and understand sources during the research process.
10/2 12:30-1:30 pm on Zoom.
Register via link: https://stonybrook.campuslabs.com/engage/event/10460202
In this workshop, librarian Christine Fena will review some ways AI is being integrated into published work within the worlds of news and scholarly publication, and discuss how this might impact how to evaluate and understand sources during the research process.
10/2 12:30-1:30 pm on Zoom.
Register via link: https://stonybrook.campuslabs.com/engage/event/10460202
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.
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.
The Renaissance School Of Medicine Department of Scientific Affairs and its Single Cell Genomics facility are excited to host a special seminar and discussion on AI and single cell genomics analysis:
With the decreasing cost of sequencing, many biobanks and large research cohorts have moved to whole genome sequencing (WGS) and single-cell RNA-seq. However, making use of this deluge of data remains a challenge. I will discuss statistical and deep learning approaches that we are exploring to address the challenge of noncoding variant interpretation, including our work as part of the Alzheimer's disease sequencing project.
Speaker: David A. Knowles, PhD. Asst. Professor of Computer Science, Interdisciplinary Appointee in Systems Biology, Columbia University Core Faculty Member, New York Genome Center
Join us in person: Health Science Tower Level 3, Lecture Hall 5
With the decreasing cost of sequencing, many biobanks and large research cohorts have moved to whole genome sequencing (WGS) and single-cell RNA-seq. However, making use of this deluge of data remains a challenge. I will discuss statistical and deep learning approaches that we are exploring to address the challenge of noncoding variant interpretation, including our work as part of the Alzheimer's disease sequencing project.
Speaker: David A. Knowles, PhD. Asst. Professor of Computer Science, Interdisciplinary Appointee in Systems Biology, Columbia University Core Faculty Member, New York Genome Center
Join us in person: Health Science Tower Level 3, Lecture Hall 5
All are welcome to attend BMI grand rounds talk by Dr. Le Lu on 04/14.
Le Lu, Ph.D
Executive Director, PAII Inc
Johns Hopkins University
IEEE Fellow, MICCAI Board Member
Time: Wednesday, April 14, 2021 3:00 pm - 4:00 pm
Zoom Meeting
https://stonybrook.zoom.us/j/95617197636?pwd=KytzZ2pVRG9SZGpKZUtpNXJISjNjZz09
Meeting ID: 956 1719 7636 Passcode: 924293
Title:
In Search of Effective and Reproducible Clinical Imaging Biomarkers for Population Health and Oncology Applications of Screening, Diagnosis and Prognosis
Bio:
Le Lu received a PhD in 2007 from Johns Hopkins University. During his first six years at Siemens, he made significant contributions to the company's CT colonography and Lung CAD product lines. From 2013 to 2017, Dr. Lu served as a staff scientist in the Radiology and Imaging Sciences department of the National Institutes of Health Clinical Center. He then went on to found Nvidia's medical image analysis group and he held the position of senior research manager until June 2018. Since then, he has been the Executive Director at PAII Inc., Bethesda Research lab, Maryland, USA which has become one of the leading industrial research labs in medical imaging. He was the main technical leader for two of the most-impactful public radiology image dataset releases (NIH ChestXray14, NIH DeepLesion 2018). He won NIH Clinical Center Director Award in 2017, NIH Mentor of the year award in 2015, and won numerous best paper awards in MICCAI and RSNA from 2016 to 2020 (over 10000 citations). In 2021, He was elected into IEEE Fellow class cited for his contribution to machine learning for cancer detection and diagnosis, and MICCAI society board member (MICCAI-Industry Workgroup Chair). He is currently an Associate Editor for IEEE Trans. Pattern Analysis and Machine Intelligence and IEEE Signal Processing Letters. He has served as an Area Chair for recent MICCAI, AAAI, CVPR, WACV, ICIP and ICHI conferences for 14 times.
Abstract:
This talk will first give an overall on the work of employing deep learning to permit novel clinical workflows in two population health tasks, namely using conventional ultrasound for liver steatosis screening and quantitative reporting; osteoporosis screening via conventional X-ray imaging and AI readers. These two tasks were generally considered as infeasible tasks for human readers, but as proved by our scientific and clinical studies and peer-reviewed publications, they are suitable for AI readers. AI can be a supplementary and useful tool to assist physicians for cheaper and more convenient/precision patient management. Next, the main part of this talk describes a roadmap on three key problems in pancreatic cancer imaging solution: early screening, precision differential diagnosis, and deep prognosis on patient survival prediction. (1) Based on a new self- learning framework, we train the pancreatic ductal adenocarcinoma (PDAC) segmentation model using a larger quantity of patients (≈1,000, four institutions), with a mix of annotated/unannotated venous or multi-phase CT images. Pseudo annotations are generated by combining two teacher models with different PDAC segmentation specialties on unannotated images, and can be further refined by a teaching assistant model that identifies associated vessels around the pancreas. Our approach makes it technically feasible for robust large-scale PDAC screening from multi-institutional multi-phase partially-annotated CT scans. (2) We propose a holistic segmentation-mesh classification network (SMCN) to provide patient-level diagnosis, by fully utilizing the geometry and location information. SMCN learns the pancreas and mass segmentation task and builds an anatomical correspondence-aware organ mesh model by progressively deforming a pancreas prototype on the raw segmentation mask. Our results are comparable to a multimodality clinical test that combines clinical, imaging, and molecular testing for clinical management of patients with cysts. (3) Accurate preoperative prognosis of resectable PDACs for personalized treatment is highly desired in clinical practice. We present a novel deep neural network for the survival prediction of resectable PDAC patients, 3D Contrast-Enhanced Convolutional Long Short-Term Memory network (CE- ConvLSTM), to derive the tumor attenuation signatures from CE-CT imaging studies. Our framework can significantly improve the prediction performances upon existing state-of-the-art survival analysis methods. This deep tumor signature has evidently added values (as a predictive biomarker) to be combined with the existing clinical staging system.
More information can be found at:
https://bmi.stonybrookmedicine.edu/sites/default/files/Lu_le_04_14.pdf
Le Lu, Ph.D
Executive Director, PAII Inc
Johns Hopkins University
IEEE Fellow, MICCAI Board Member
Time: Wednesday, April 14, 2021 3:00 pm - 4:00 pm
Zoom Meeting
https://stonybrook.zoom.us/j/
Meeting ID: 956 1719 7636 Passcode: 924293
Title:
In Search of Effective and Reproducible Clinical Imaging Biomarkers for Population Health and Oncology Applications of Screening, Diagnosis and Prognosis
Bio:
Le Lu received a PhD in 2007 from Johns Hopkins University. During his first six years at Siemens, he made significant contributions to the company's CT colonography and Lung CAD product lines. From 2013 to 2017, Dr. Lu served as a staff scientist in the Radiology and Imaging Sciences department of the National Institutes of Health Clinical Center. He then went on to found Nvidia's medical image analysis group and he held the position of senior research manager until June 2018. Since then, he has been the Executive Director at PAII Inc., Bethesda Research lab, Maryland, USA which has become one of the leading industrial research labs in medical imaging. He was the main technical leader for two of the most-impactful public radiology image dataset releases (NIH ChestXray14, NIH DeepLesion 2018). He won NIH Clinical Center Director Award in 2017, NIH Mentor of the year award in 2015, and won numerous best paper awards in MICCAI and RSNA from 2016 to 2020 (over 10000 citations). In 2021, He was elected into IEEE Fellow class cited for his contribution to machine learning for cancer detection and diagnosis, and MICCAI society board member (MICCAI-Industry Workgroup Chair). He is currently an Associate Editor for IEEE Trans. Pattern Analysis and Machine Intelligence and IEEE Signal Processing Letters. He has served as an Area Chair for recent MICCAI, AAAI, CVPR, WACV, ICIP and ICHI conferences for 14 times.
Abstract:
This talk will first give an overall on the work of employing deep learning to permit novel clinical workflows in two population health tasks, namely using conventional ultrasound for liver steatosis screening and quantitative reporting; osteoporosis screening via conventional X-ray imaging and AI readers. These two tasks were generally considered as infeasible tasks for human readers, but as proved by our scientific and clinical studies and peer-reviewed publications, they are suitable for AI readers. AI can be a supplementary and useful tool to assist physicians for cheaper and more convenient/precision patient management. Next, the main part of this talk describes a roadmap on three key problems in pancreatic cancer imaging solution: early screening, precision differential diagnosis, and deep prognosis on patient survival prediction. (1) Based on a new self- learning framework, we train the pancreatic ductal adenocarcinoma (PDAC) segmentation model using a larger quantity of patients (≈1,000, four institutions), with a mix of annotated/unannotated venous or multi-phase CT images. Pseudo annotations are generated by combining two teacher models with different PDAC segmentation specialties on unannotated images, and can be further refined by a teaching assistant model that identifies associated vessels around the pancreas. Our approach makes it technically feasible for robust large-scale PDAC screening from multi-institutional multi-phase partially-annotated CT scans. (2) We propose a holistic segmentation-mesh classification network (SMCN) to provide patient-level diagnosis, by fully utilizing the geometry and location information. SMCN learns the pancreas and mass segmentation task and builds an anatomical correspondence-aware organ mesh model by progressively deforming a pancreas prototype on the raw segmentation mask. Our results are comparable to a multimodality clinical test that combines clinical, imaging, and molecular testing for clinical management of patients with cysts. (3) Accurate preoperative prognosis of resectable PDACs for personalized treatment is highly desired in clinical practice. We present a novel deep neural network for the survival prediction of resectable PDAC patients, 3D Contrast-Enhanced Convolutional Long Short-Term Memory network (CE- ConvLSTM), to derive the tumor attenuation signatures from CE-CT imaging studies. Our framework can significantly improve the prediction performances upon existing state-of-the-art survival analysis methods. This deep tumor signature has evidently added values (as a predictive biomarker) to be combined with the existing clinical staging system.
More information can be found at:
https://bmi.
International Love Data Week is a global event dedicated to celebrating data in all its forms. This year, Stony Brook University is excited to celebrate Love Data Week with a series of 30-minute webinars aimed to promote proficiency with data, showcase innovative data projects, and foster a community of data enthusiasts across campus. Hosted by the Division of Educational & Institutional Effectiveness and facilitated by the Office of Educational Effectiveness, we invite all SBU faculty, staff and students to join in the festivities, learn from colleagues in our campus community, and fall in love with the power of data! Learn more here. |
Please join University Libraries on March 29 at 1:00 via Zoom as we welcome Dr. Zhang, SUNY Empire Innovation Professor at SBU's Power Lab. This lab is pioneering the research of coordinated networked microgrids (NMs) that can possibly help to restore neighboring distribution grids after a major blackout. That these NMs hold promise to significantly enhance the day-to-day reliability of the power grids, we are proud to host Dr. Zhang as a member of our STEM Speaker Series. Registration required.
https://library.stonybrook.
Abstract: The landscape of machine learning evolves rapidly and the complexity of the networks and their architectures defies easy comprehension. AI is touted as the next scientific revolution by allowing the processing and pattern-finding in increasingly massive data sets. One potential end results could be AI enhanced measurement technologies, but what does that mean? This talk will give examples of how classical tools indicate the technical obstacles to this vision in terms of understanding training processes, model comparisons, and feature embeddings. While the results in this talk are largely empirical, they point to interesting directions for (infomation?) theoretical investigation.
Bio: Anand D. Sarwate is an Associate Professor in the Electrical and Computer Engineering Department at Rutgers, The State University of New Jersey. He received B.S. degrees in math and electrical engineering from MIT and a Ph.D. in electrical engineering from UC Berkeley. Prior to joining Rutgers he was a Research Assistant Professor at TTI-Chicago and a postdoc at the ITA Center at UC San Diego. His research interests include information theory, machine learning, signal processing, optimization, and privacy and security.
Location: Light Engineering 250
Talk Title: Knowledge-enhanced LLMs and Human-AI Collaboration Frameworks for Creativity Support
Abstract:
Large language models (LLMs) constitute a paradigm shift in Natural Language Processing and Artificial Intelligence. To build AI systems that are human-centered, I propose we need knowledge-aware models and human-AI collaboration frameworks to help them solve tasks ultimately aligning these models better with human values. In this talk, I will discuss my research agenda for human-centered AI with a case study on creativity that focuses on how to augment LMs with external knowledge, build effective human-AI collaboration frameworks as well as theoretically grounded robust evaluation protocols for measuring capabilities of NLG systems. I will begin by describing knowledge-enhanced methods for creative text generation such as metaphors. Next, I will describe how content creators can collaborate and benefit from the creative capabilities of text-to-image-based AI models. Finally, I will focus on the design and development of theoretically grounded evaluation protocols to benchmark the creative capabilities of Large Language Models in both producing as well as assessing creative text. I will end this talk by highlighting the current limitations of existing models and future directions toward building better models that will enable efficient and trustworthy human-AI collaboration systems.
Bio:
Tuhin Chakrabarty is a final-year Ph.D. candidate in the Natural Language Processing group within the Computer Science department at Columbia University. His research is supported by the Columbia Center of Artificial Intelligence & Technology (CAIT) & an Amazon Science Ph.D. Fellowship. He was also a Computational Journalism fellow at NYTimes R&D and an intern at the Allen Institute of Artificial Intelligence, Salesforce Research, and Deepmind. His research interests are broadly in Natural Language Processing, Computer Vision, and Human-Computer Interaction with a special focus on Human-Centered Methods for Understanding, Generation, and Evaluation of Creativity. His work has been recognized at top natural language processing and human-computer interaction conferences and journals such as ACL, NAACL, EMNLP, TACL, and CHI. He has been involved in organizing several workshops and tutorials at NLP conferences such Figurative Language Processing workshop at EMNLP 2022, NAACL 2024, and the tutorial on Creative Text Generation at EMNLP 2023. His work on AI and creativity has been mentioned in mainstream news media such as The Hollywood Reporter and more recently The Washington Post.
Join Zoom Meeting https://stonybrook.zoom.us/j/97103601583?pwd=TnpGMXdpeEd1N0hZcXppS1BLNFJhZz09 (ID: 97103601583, passcode: 004031) Join by phone (US) +1 646-931-3860 (passcode: 004031) Joining instructions: https://www.google.com/url?q=https://applications.zoom.us/addon/invitation/detail?meetingUuid%3DILacj94mRvSXgTYt0Cqs1w%253D%253D%26signature%3D9f2f1e7e603bbcb9034724d084eea8846c19a38b7436180170dfc3f1d718b425%26v%3D1&sa=D&source=calendar&usg=AOvVaw3MsNgLSPMRl8L5i6BosYrB Meeting host: H.Andrew.Schwartz@stonybrook.eduJoin Zoom Meeting:
https://stonybrook.zoom.us/j/97103601583?pwd=TnpGMXdpeEd1N0hZcXppS1BLNFJhZz09