Sunday, November 24, 2024 11/24/2024

Manipulating nucleic acids: applications in RNA biosensing, single-molecule analysis, and DNA nanotechnology

Award Number: R35GM124720
ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

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Project Summary Our vision is to develop, apply, and advance new technologies in the broad thematic program of the manipulation of nucleic acids. The research largely focuses on RNA-based applications, which is both driven and enhanced by our unique environment at The RNA Institute, enabling easy collaboration and cross pollination of ideas and techniques across fields. The importance of RNA and RNA technologies has never been clearer, with a pandemic RNA virus (SARS-CoV-2) being managed by RNA biosensing tools and mRNA-based vaccines. It is now well accepted that RNA plays a complex role in biology that goes far beyond the “central dogma”. Elucidating many RNA functions and biomedical applications requires investment in technology development. In this proposal, carried out over the next five years, we aim to advance technology in three main areas: 1) DNA nanoswitches as programmable nanoscale reagents for reporting molecular interactions, 2) the Centrifuge Force Microscope (CFM) for high throughput single molecule probing and analysis, and 3) DNA nanotechnology for applications in drug delivery and sensing. Each of these areas builds on our strengths and past performance. In the first area, we use DNA nanoswitches as “smart” reagents that change conformation upon binding a target molecule. Building on past success, we will expand this innovative method to enable low cost and simple RNA detection, quantification, and purification for various RNAs. These include detection of RNA modifications, detection of regulatory lncRNAs, and purification of RNA and RNA complexes. In the second area, we will develop and execute assays for the Centrifuge Force Microscope (CFM) in RNA and DNA interaction analysis and RNA structure-function probing. In particular, we will investigate fundamental thermodynamics of weak interactions in DNA and RNA, develop a new method for single-molecule structural probing of RNA, and study the structure-function relationship of a pre-clinical therapeutic ribozyme. In the third area, relatively new for our lab, we expand work to analyze and develop DNA nanotechnology for applications including drug delivery. Specifically, we are interested in understanding and “programming” biostability into DNA nanostructures, and in coordinating chemical attachment and triggered release of molecular payloads from DNA nanostructures. This proposal aims to carry out ambitious research and development plans performed within the context of several biomedical projects. The impact of the developments will extend beyond the individual projects, as our core technologies and methods are increasingly adopted by other groups. In the first MIRA term we have proven our ability to develop impactful technology and advance innovative science on several fronts. In this second term, we aim show sustainability of our research endeavors, solidifying our niches, maintaining high productivity, and ultimately producing knowledge and tools to benefit the scientific community.


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: 2025 ( Subtotal = $0 )
2025	2024	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	8	11/13/2024	NON-COMPETING CONTINUATION	$0
														Subtotal = $0

Issue Date FY: 2024 ( Subtotal = $514,509 )
2024	2024	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	001	8	9/20/2024	SUPPLEMENT FOR EXPANSION	$84,134
2024	2024	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	8	7/9/2024	NON-COMPETING CONTINUATION	$430,375
														Subtotal = $514,509

Issue Date FY: 2023 ( Subtotal = $680,325 )
2023	2023	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	002	7	9/15/2023	NON-COMPETING CONTINUATION	$430,375
2023	2023	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	003	7	9/18/2023	SUPPLEMENT FOR EXPANSION	$249,950
2023	2022	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	001	6	8/9/2023	COMPETING CONTINUATION	$7,765
2023	2021	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	5	8/9/2023	NON-COMPETING CONTINUATION	-$7,765
														Subtotal = $680,325

Issue Date FY: 2022 ( Subtotal = $460,856 )
2022	2022	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	6	9/14/2022	COMPETING CONTINUATION	$460,856
														Subtotal = $460,856

Issue Date FY: 2021 ( Subtotal = $386,250 )
2021	2021	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	5	7/22/2021	NON-COMPETING CONTINUATION	$386,250
														Subtotal = $386,250

Issue Date FY: 2020 ( Subtotal = $386,250 )
2020	2020	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	4	8/13/2020	NON-COMPETING CONTINUATION	$386,250
														Subtotal = $386,250

Issue Date FY: 2019 ( Subtotal = $525,300 )
2019	2019	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	001	3	9/5/2019	SUPPLEMENT FOR EXPANSION	$139,050
2019	2019	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	3	8/2/2019	NON-COMPETING CONTINUATION	$386,250
														Subtotal = $525,300

Issue Date FY: 2018 ( Subtotal = $386,250 )
2018	2018	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	2	7/30/2018	NON-COMPETING CONTINUATION	$386,250
														Subtotal = $386,250

Issue Date FY: 2017 ( Subtotal = $386,250 )
2017	2017	RESEARCH FOUNDATION FOR THE STATE UNIVERSITY OF NEW YORK, THE	1400 WASHINGTON AVE	ALBANY	NY	12222	ALBANY	USA	Biomedical Research and Research Training	000	1	7/27/2017	NEW	$386,250
														Subtotal = $386,250

Grand Total All Awards = $3,725,990

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Manipulating nucleic acids: applications in RNA biosensing, single-molecule analysis, and DNA nanotechnology

Award Number: R35GM124720

ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

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

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