Segmentation of Kidney Structures

Date(s) - 11/27/2023
3:00 pm - 4:00 pm

Communicore, C1-15

Pinaki Sarder, Ph.D., Associate Professor of Quantitative Health, Department of Medicine, Associate Director for Imaging, Intelligent Critical Care Center, University of Florida

This talk will introduce the emerging field of digital and computational pathology, utilizing examples from studies focused on kidney microanatomy. We will delve into an overview of our research and that of others in the literature, specifically concerning the segmentation and feature extraction of kidney microanatomy from histology. Furthermore, we’ll explore the impact of our work in areas such as diabetic nephropathy classification, chronic kidney disease trajectory prediction, and its relevance to the NIH Kidney Precision Medicine Project (KPMP) consortium. Additionally, we will highlight our ongoing efforts within the Human Biomolecular Atlas Project (HuBMAP) consortium. Our focus here is directed towards detecting and segmenting multiple cell types and states exclusively from brightfield histology images. We will demonstrate a cloud-based, end-to-end system that operates through the UF supercomputing center. This system is designed to conduct various computational tasks related to renal pathology, starting with the analysis of brightfield histology images and extending to the integration of histology with spatial omics data. Lastly, we’ll conclude by discussing new opportunities and potential directions for collective contributions in the field of computational pathology.

Bio: Pinaki Sarder is currently an associate professor of AI in the Division of Nephrology of the Department of Medicine as well as the Associate Director for Imaging in the Intelligent Critical Care Center at the University of Florida (UF) in Gainesville. Before joining UF, he was an associate professor in the Departments of Pathology & Anatomical Sciences and Biomedical Engineering at the University at Buffalo (UB), where he was at the center of building the computationally enabled graduate program Computational Cell Biology, Anatomy, and Pathology (CCBAP). Prior to his time at UB, he was a post-doctoral research associate at Mallinckrodt Institute of Radiology at the Washington University School of Medicine in St. Louis. He received his B.Tech. degree in electrical engineering from the Indian Institute of Technology, Kanpur, in 2003, and M.Sc. and Ph.D. degrees in electrical engineering from Washington University in St. Louis, in 2010. Dr. Sarder serves on the editorial board of the Journal of the American Society of Nephrology (JASN) and is a senior member of IEEE. He was a recipient of the University at Buffalo’s Exceptional Scholars – Young Investigator Award in 2018. His current research interests include computational fusion of diverse spatial omics data while focusing on studying diabetic kidney disease. Dr. Sarder’s research is funded by the National Institutes of Health, Kidney Precision Medicine Project (KPMP) Consortium, and Human Biomolecular Atlas Project (HubMAP) Consortium.