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Center for Viral Systems Biology- Outbreak.info

Award Number: U19AI135995
ORGANIZATION: NATIONAL INSTITUTE OF ALLERGY & INFECTIOUS DISEASES
OPDIV: NIH
AWARD CLASS: COOPERATIVE AGREEMENT
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 05/01/2026
PERIOD OF PERFORMANCE END DATE: 01/31/2028

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Center for Viral Systems Biology- Outbreak.info - Summary Timely detection and interpretation of rapidly evolving pathogens with pandemic potential requires integrated, real-time surveillance frameworks that extend beyond traditional genomic monitoring. We previously developed outbreak.info to track the epidemiology, evolution, and scientiﬁc literature of outbreak pathogens, and recent events, including the emergence of highly pathogenic avian inﬂuenza A(H5N1) clade 2.3.4.4b in a new mammalian reservoir, underscore the need for more ﬂexible, scalable tools that can assess both viral evolution and functional risk as outbreaks unfold. Here, we propose to continue developing and expanding outbreak.info into a pathogen-agnostic outbreak intelligence framework that supports real-time functional surveillance of emerging and endemic pathogens of high relevance to human health. This framework integrates large-scale genomic data with functional and literature-derived information by ingesting data from open, U.S.-based resources, including NCBI GenBank, the Sequence Read Archive, PubMed, and the NIAID Data Ecosystem. By combining traditional genomic surveillance with in vitro, in silico, and literature-based functional data, outbreak.info will enable the assessment of viral evolution, phenotypic change, and risk across both host-level and population-level contexts, including individual infections and aggregate sources such as wastewater and milk. The proposed framework consists of automated genomic data ingestion and analysis pipelines, tools for genotype-to-phenotype prediction and functional classiﬁcation, and real-time analyses, visualizations, and reporting delivered through outbreak.info. Together, these components provide a ﬂexible, scalable early warning system designed to support rapid detection and interpretation of emerging viral phenotypes with pandemic potential.


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 = $2,971,268 )
2026	2026	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	9	4/10/2026	NON-COMPETING CONTINUATION	$2,565,260
2026	2026	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	9	8/4/2026	SUPPLEMENT FOR EXPANSION	$406,008
														Subtotal = $2,971,268

Issue Date FY: 2025 ( Subtotal = $2,568,706 )
2025	2025	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	8	2/18/2025	NON-COMPETING CONTINUATION	$2,568,706
														Subtotal = $2,568,706

Issue Date FY: 2024 ( Subtotal = $3,408,544 )
2024	2024	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	006	7	4/30/2024	NON-COMPETING CONTINUATION	$254,510
2024	2024	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	009	7	8/22/2024	SUPPLEMENT FOR EXPANSION	$0
2024	2024	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	005	7	1/12/2024	NON-COMPETING CONTINUATION	$2,290,387
2024	2024	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	007	7	5/9/2024	SUPPLEMENT FOR EXPANSION	$43,647
2024	2024	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	010	7	9/4/2024	NON-COMPETING CONTINUATION	$0
2024	2024	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	008	7	8/20/2024	SUPPLEMENT FOR EXPANSION	$820,000
2024	2023	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	6	10/18/2023	COMPETING CONTINUATION	$635,805
2024	2023	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	004	6	1/4/2024	COMPETING CONTINUATION	$0
2024	2022	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	5	10/18/2023	NON-COMPETING CONTINUATION	-$635,805
2024	2021	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	003	4	10/18/2023	SUPPLEMENT FOR EXPANSION	$0
2024	2021	SCRIPPS RESEARCH INSTITUTE	10550 N TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	002	4	10/18/2023	SUPPLEMENT FOR EXPANSION	$0
														Subtotal = $3,408,544

Issue Date FY: 2023 ( Subtotal = $2,650,390 )
2023	2023	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	002	6	8/29/2023	COMPETING CONTINUATION	$0
2023	2023	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	6	2/6/2023	COMPETING CONTINUATION	$0
2023	2023	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	6	1/4/2023	COMPETING CONTINUATION	$2,650,390
														Subtotal = $2,650,390

Issue Date FY: 2022 ( Subtotal = $3,000,000 )
2022	2022	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	002	5	1/28/2022	NON-COMPETING CONTINUATION	$2,550,000
2022	2022	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	004	5	3/4/2022	NON-COMPETING CONTINUATION	$0
2022	2022	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	003	5	2/25/2022	SUPPLEMENT FOR EXPANSION	$450,000
2022	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	005	4	3/4/2022	SUPPLEMENT FOR EXPANSION	$0
2022	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	4	10/19/2021	SUPPLEMENT FOR EXPANSION	$0
2022	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	006	4	3/11/2022	SUPPLEMENT FOR EXPANSION	$0
2022	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	4	1/27/2022	SUPPLEMENT FOR EXPANSION	$0
														Subtotal = $3,000,000

Issue Date FY: 2021 ( Subtotal = $4,360,690 )
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	005	4	7/28/2021	NON-COMPETING CONTINUATION	$0
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	006	4	9/2/2021	NON-COMPETING CONTINUATION	$168,625
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	3	12/11/2020	SUPPLEMENT FOR EXPANSION	$450,000
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	007	4	9/7/2021	SUPPLEMENT FOR EXPANSION	$597,119
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	004	4	3/24/2021	SUPPLEMENT FOR EXPANSION	$594,946
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	002	4	3/18/2021	NON-COMPETING CONTINUATION	$2,550,000
2021	2021	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	003	4	3/18/2021	SUPPLEMENT FOR EXPANSION	$450,000
2021	2020	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	3	12/11/2020	NON-COMPETING CONTINUATION	-$450,000
														Subtotal = $4,360,690

Issue Date FY: 2020 ( Subtotal = $3,872,765 )
2020	2020	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	3	5/15/2020	SUPPLEMENT FOR EXPANSION	$622,765
2020	2020	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	3	1/23/2020	NON-COMPETING CONTINUATION	$3,000,000
2020	2020	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	002	3	9/3/2020	SUPPLEMENT FOR EXPANSION	$250,000
														Subtotal = $3,872,765

Issue Date FY: 2019 ( Subtotal = $3,150,000 )
2019	2019	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	001	2	8/19/2019	NON-COMPETING CONTINUATION	$150,000
2019	2019	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	2	1/18/2019	NON-COMPETING CONTINUATION	$3,000,000
														Subtotal = $3,150,000

Issue Date FY: 2018 ( Subtotal = $3,000,000 )
2018	2018	SCRIPPS RESEARCH INSTITUTE, THE	10550 NORTH TORREY PINES RD	LA JOLLA	CA	92037	SAN DIEGO	USA	Allergy and Infectious Diseases Research	000	1	1/29/2018	NEW	$3,000,000
														Subtotal = $3,000,000

Grand Total All Awards = $28,982,363

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Center for Viral Systems Biology- Outbreak.info

Award Number: U19AI135995

ORGANIZATION: NATIONAL INSTITUTE OF ALLERGY & INFECTIOUS DISEASES

OPDIV: NIH

AWARD CLASS: COOPERATIVE AGREEMENT

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

PERIOD OF PERFORMANCE START DATE: 05/01/2026

PERIOD OF PERFORMANCE END DATE: 01/31/2028

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