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Harnessing RNA-seq Preprocessing Discrepancies to Reveal Novel Biological Insights in Alzheimer's Disease

Award Number: F32AG099440
ORGANIZATION: NATIONAL INSTITUTE ON AGING
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: FELLOWSHIP/SCHOLARSHIP/STUDENT LOANS
PERIOD OF PERFORMANCE START DATE: 08/06/2026
PERIOD OF PERFORMANCE END DATE: 08/07/2026
AWARD TERMINATION DATE: 08/12/2026

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Harnessing RNA-seq Preprocessing Discrepancies to Reveal Novel Biological Insights in Alzheimer's Disease - PROJECT SUMMARY Transcriptomic data is fundamental to Alzheimer's Disease (AD) and other disease research, guiding the identification of potential therapeutic targets and biomarkers; however, the use of non-standard RNA-seq preprocessing methods, including variations in trimming, hinders reliable biomarker and treatment target discovery, creating significant variability in results. This project will address this issue by establishing empirically validated best practices for RNA-seq preprocessing in AD research, to also enable the potential identification of reliable fibroblast biomarkers. It will quantify how alignment (STAR, HISAT2, GSNAP), counting (HOMER, HTSeq), and trimming methodologies influence: (1) detection of splice junctions, (2) reproducibility of differentially expressed genes (DEGs), and (3) consistency of splicing quantitative trait loci (sQTLs) at AD- relevant loci. By resolving current methodological variability that confounds splicing-based analyses and disseminating an optimized pipeline, this project will improve the reliability of transcriptomic biomarker identification and AD clinical trials, and advance computational standards with the understanding of splicing dysregulation in AD pathogenesis.


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	2026	SALK INSTITUTE FOR BIOLOGICAL STUDIES, SAN DIEGO, CALIFORNIA, THE	10010 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Aging Research	000	1	8/6/2026	NEW	$92,476
2026	2026	SALK INSTITUTE FOR BIOLOGICAL STUDIES, SAN DIEGO, CALIFORNIA, THE	10010 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Aging Research	001	1	8/12/2026	TERMINATION	-$92,476
														Subtotal = $0

Grand Total All Awards = $0

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Harnessing RNA-seq Preprocessing Discrepancies to Reveal Novel Biological Insights in Alzheimer's Disease

Award Number: F32AG099440

ORGANIZATION: NATIONAL INSTITUTE ON AGING

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: FELLOWSHIP/SCHOLARSHIP/STUDENT LOANS

PERIOD OF PERFORMANCE START DATE: 08/06/2026

PERIOD OF PERFORMANCE END DATE: 08/07/2026

AWARD TERMINATION DATE: 08/12/2026

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