What we do!
We develop novel computational methods to study and understand tissue micro-anatomy using spatial-omics data acquired via diverse technologies. Our method has implications in clinical diagnostics and allows for studying the fundamentals of biological systems. Currently, our major focus involves studying diabetic kidney disease in humans.
We published our work for the community on our cloud-based instance for digital pathology WSI visualization, automated segmentation, and error correction for training a semantic segmentation model. The source code, docker image, and a video overview are freely made available for the community.
Our work integrating deep semantic segmentation and transformer models for disease progression prediction starting from digital image pixels and preserving pixel level spatial relationships between important tissue structures is available online. Great work by Ben Shickel (Assistant Professor, Medicine – Quantitative Health) and Nicholas Lucarelli.
We released FUSION (Functional Unit State Identification in WSIs), a dynamic and interactive visualization tool specialized for spatially resolved molecular-omics and histology images. Example datasets and more information can be found at here. Link to the codes.
Postdoctoral Associate position available: Job description.
Undergraduate Research Internship available: Job description.
HuBMAP Summer Internship: HuBMAP Website.
We are thrilled to extend an invitation to join us for the HuBMAP March Demo Day. This in-person meeting is scheduled for March 14-15, 2024, and will be hosted at the UF Health Research and Academic Center – Lake Nona, located at 6550 Sanger Rd, Orlando, FL 32827
02/20/2024 The CIMAP laboratory at the University of Florida is now welcoming applications for the 2024 Spring Break Research Experience. This is a remote 5-day internship that will take place over spring break from March 11th-March 15th 2024. For more information please check out this page
15/12/2023 Nicholas Lucarelli’s paper, “Correlating Deep Learning-Based Automated Reference Kidney Histomorphometry with Patient Demographics and Creatinine,” has been chosen for the cover of the December 2023 issue of Kidney 360
05/11/2023 CMIL recently made significant strides in nephrology research, showcased during the American Society of Nephrology (ASN) Kidney Week event held in Philadelphia, PA, from November 2nd to November 5th, 2023. Presenting a total of 8 abstracts, the lab’s groundbreaking work elucidated crucial aspects of kidney health and disease
09/28/2023 CMIL has secured a $2.8 million grant for a five-year project to advance kidney transplants using artificial intelligence (AI). Check UF Health News for more information
09/19/2023 Dr. Sarder is honored to present twice at this year’s Bergen Meeting of Nephrology! He will be representing UF and UF_IC3 to showcase work from the CMIL on our ‘Cloud-based AI analysis suite for kidney pathology’ and ‘Segmentation of kidney structures’
PRESENTATIONS BY OUR STUDENTS
Akshita Gupta presenting her poster at the ASN Kidney Week 2023; Philadelphia, PA.
Our spring break HUBMAP intern, Nick Sherwin, participated in the UF 2023 Spring Undergraduate Research Symposium.
Nick is presenting his and Brandon Ginley’s poster. The poster received an Honorable Mention Poster Award in SPIE Medical Imaging 2023; San Diego, CA.