Friday, December 19, 2025 12/19/2025

Image Tools for Computational Cellular Barcoding and Automated Annotation

Award Number: R01LM013617
ORGANIZATION: NATIONAL LIBRARY OF MEDICINE
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 01/19/2022
PERIOD OF PERFORMANCE END DATE: 12/31/2025

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Image Tools for Computational Cellular Barcoding and Automated Annotation - PROJECT SUMMARY With technological breakthroughs in high-throughput single-cell imaging and screening, we can precisely monitor native cell behavior in response to diverse stimuli. Improvements in resolution and new detection capacity further enrich the recording from each cell. Many image-processing steps that help to extract the full breadth of the recording can be automated to a throughput comparable to the imaging itself. However, because biological samples can be complex and nonhomogeneous, it is valuable to specify subsets of cells when addressing downstream biological questions. With the amount of data that can now be generated from high-throughput measurements, this subset-selection step is a significant bottleneck to obtaining a quantitative result about the biological sample. Currently, the gold standard to reliably filter through cell data is manual annotation by a technician. This approach is costly and time-consuming, creating a significant bottleneck to answering important biological questions. To overcome this bottleneck, we will develop tools to automate annotation with three unique approaches: chemical annotation, annotation amplification, and cellular barcoding. Chemical annotation will deliver a computer-readable cell label via an additional biomarker. Annotation amplification will use small, curated datasets to generate large ones. Cellular barcoding will identify pixel-based signatures to uniquely identify individual cells. Once annotation is addressed computationally, relevant cells can be classified in-line with the acquisition. We can then produce a large annotated dataset. Both the computational tools and data repository will be shared with the scientific community as a validation set for new models and as a foundation for algorithms that could be developed across research groups studying cells with fluorescence imaging. The goal of this work is to generate the technology and define the experimental-computational methods that automate the highly manual steps of cell curation through a strong interplay between wet-lab and machine-learning techniques. The technology we propose is relevant to a broad scope of high-throughput measurement applications, because it enables curating samples computationally rather than experimentally.


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 = $0 )
2026	2025	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	000	4	11/25/2025	NON-COMPETING CONTINUATION	$0
														Subtotal = $0

Issue Date FY: 2025 ( Subtotal = $398,349 )
2025	2025	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	000	4	12/20/2024	NON-COMPETING CONTINUATION	$358,515
2025	2025	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	001	4	6/6/2025	NON-COMPETING CONTINUATION	$39,834
														Subtotal = $398,349

Issue Date FY: 2024 ( Subtotal = $398,349 )
2024	2024	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	001	3	4/30/2024	NON-COMPETING CONTINUATION	$39,834
2024	2024	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	000	3	12/21/2023	NON-COMPETING CONTINUATION	$358,515
														Subtotal = $398,349

Issue Date FY: 2023 ( Subtotal = $405,469 )
2023	2023	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	000	2	12/9/2022	NON-COMPETING CONTINUATION	$405,469
														Subtotal = $405,469

Issue Date FY: 2022 ( Subtotal = $413,479 )
2022	2022	J.DAVID GLADSTONE INSTITUTES	1650 OWENS ST	SAN FRANCISCO	CA	94158	SAN FRANCISCO	USA	Medical Library Assistance	000	1	1/19/2022	NEW	$413,479
														Subtotal = $413,479

Grand Total All Awards = $1,615,646

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Image Tools for Computational Cellular Barcoding and Automated Annotation

Award Number: R01LM013617

ORGANIZATION: NATIONAL LIBRARY OF MEDICINE

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

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

PERIOD OF PERFORMANCE START DATE: 01/19/2022

PERIOD OF PERFORMANCE END DATE: 12/31/2025

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