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Differential exon usage in single cell RNA-seq

Award Number: R16GM149510
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: 06/01/2023
PERIOD OF PERFORMANCE END DATE: 05/31/2027

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Differential exon usage in single cell RNA-seq - Project Summary Alternative splicing generates transcripts that vary between tissues and cell types, and contributes to cell differentiation and organ development. Despite its importance in development and cell identity, alternative splicing is usually neglected in single cell RNA sequencing (scRNA-seq) analysis. This is due to the challenge in identifying confident alternative splicing events from scRNA- seq data, which are limited in read-depth, and comes with large amount of noise due to variation in molecule capture efficiency, amplification bias, and excessive zero-counts or dropouts. We propose a novel approach to infer differential splicing based on short-read full-length scRNA-seq data, utilizing read counts mapping to adjacent exons. In addition, we plan to systematically evaluate existing approaches to answer questions on the strategy regarding the variable, pooling and dispersion estimates. Finally, we will assess the accuracy of short read based methods by comparing against scRNA-seq generated with new types of protocols. The work proposed will increase our understanding on the utility and limitations of short read scRNA-seq data, and provide a better pipeline for alternative splicing analysis in scRNA-seq.


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 = $145,556 )
2025	2025	BOARD OF REGENTS OF NEVADA SYSTEM OF HIGHER EDUCATION	4505 S MARYLAND PKWY	LAS VEGAS	NV	89154	CLARK	USA	Biomedical Research and Research Training	000	3	4/29/2025	NON-COMPETING CONTINUATION	$145,556
														Subtotal = $145,556

Issue Date FY: 2024 ( Subtotal = $145,639 )
2024	2024	BOARD OF REGENTS OF NEVADA SYSTEM OF HIGHER EDUCATION	4505 S MARYLAND PKWY	LAS VEGAS	NV	89154	CLARK	USA	Biomedical Research and Research Training	000	2	5/15/2024	NON-COMPETING CONTINUATION	$145,639
														Subtotal = $145,639

Issue Date FY: 2023 ( Subtotal = $145,854 )
2023	2023	BOARD OF REGENTS NEVADA SYSTEM OF HIGHER EDUCATION	4505 S MARYLAND PKWY	LAS VEGAS	NV	89154	CLARK	USA	Biomedical Research and Research Training	000	1	5/2/2023	NEW	$145,854
														Subtotal = $145,854

Grand Total All Awards = $437,049

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Differential exon usage in single cell RNA-seq

Award Number: R16GM149510

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: 06/01/2023

PERIOD OF PERFORMANCE END DATE: 05/31/2027

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