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In vivio single-cell analysis of dynamic cell behaviors

Award Number: R01GM152927
ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 03/01/2024
PERIOD OF PERFORMANCE END DATE: 01/31/2028

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In vivio single-cell analysis of dynamic cell behaviors - Imaging plays an increasingly important role in studying development and complex tissue formation across molecular, cellular and tissue levels. Fluorescence 3D time-lapse imaging allows every cell in a tissue or entire organism to be imaged, tracked and measured over hours and days to analyze lineage differentiation and dynamic cell behaviors. Other modalities, e.g., electron and expansion microscopy reveal fine structural phenomena, while emerging genomics technologies, e.g., spatial transcriptomics, seek to merge with microscopy to further provide systematic molecular information. Effective tools of image analysis are crucial to extract, integrate and interpret the information. We propose to leverage the power of deep learning to develop image analysis tools for systematic in vivo single-cell analysis, and to leverage such analysis to study collective cell behaviors in tissue morphogenesis, with three Aims. First, we will develop deep learning methods for accurate cell tracking, which is the essential first step to trace cell lineages and measure dynamic cell behaviors. We aim to produce a tool that can deliver substantial cell lineages with hundreds to thousands of cells imaged over hours to days in a wide range of model organisms and organoid cultures. Second, we will automate landmark-based image registration, which is crucial for cross-modality data integration. We propose a generalizable approach that uses statistical templates and Neural Networks to address the unique challenge in developmental images, namely heterochrony of developmental processes that creates combinatorial configurations of landmarks and complex systematic co-variance. Third, we study a novel Planar Cell Polarity (PCP) scheme in C. elegans, which we discovered through cell tracking and deep learning of cell movement patterns. By dissecting the compound polarity scheme and context specific regulators, we aim to understand how the conserved core PCP pathway can coordinate with different polarity pathways in order to orchestrate diverse motile behaviors in diverse developmental processes. By integrating technology development and hypothesis driven research, our proposal will further our understanding of embryogenesis and complex tissue formation.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2026 ( Subtotal = $439,849 )
2026	2026	SLOAN-KETTERING INSTITUTE FOR CANCER RESEARCH	1275 YORK AVE	NEW YORK	NY	10065	NEW YORK	USA	Biomedical Research and Research Training	001	3	2/24/2026	NON-COMPETING CONTINUATION	$439,849
2026	2025	SLOAN-KETTERING INSTITUTE FOR CANCER RESEARCH	1275 YORK AVE	NEW YORK	NY	10065	NEW YORK	USA	Biomedical Research and Research Training	000	2	2/16/2026	NON-COMPETING CONTINUATION	$0
														Subtotal = $439,849

Issue Date FY: 2025 ( Subtotal = $443,265 )
2025	2025	SLOAN-KETTERING INSTITUTE FOR CANCER RESEARCH	1275 YORK AVE	NEW YORK	NY	10065	NEW YORK	USA	Biomedical Research and Research Training	001	2	8/12/2025	NON-COMPETING CONTINUATION	$44,328
2025	2025	SLOAN-KETTERING INSTITUTE FOR CANCER RESEARCH	1275 YORK AVE	NEW YORK	NY	10065	NEW YORK	USA	Biomedical Research and Research Training	000	2	1/16/2025	NON-COMPETING CONTINUATION	$398,937
														Subtotal = $443,265

Issue Date FY: 2024 ( Subtotal = $469,207 )
2024	2024	SLOAN-KETTERING INSTITUTE FOR CANCER RESEARCH	1275 YORK AVENUE	NEW YORK	NY	10065	NEW YORK	USA	Biomedical Research and Research Training	000	1	2/21/2024	NEW	$469,207
														Subtotal = $469,207

Grand Total All Awards = $1,352,321

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In vivio single-cell analysis of dynamic cell behaviors

Award Number: R01GM152927

ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

PERIOD OF PERFORMANCE START DATE: 03/01/2024

PERIOD OF PERFORMANCE END DATE: 01/31/2028

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