Saturday, November 23, 2024 11/23/2024

Alliance Central: A platform for sustainable development of next generation genome knowledgebases

Award Number: U24HG010859
ORGANIZATION: NATIONAL HUMAN GENOME RESEARCH INSTITUTE
OPDIV: NIH
AWARD CLASS: COOPERATIVE AGREEMENT
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

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SUMMARY Model organisms are essential experimental systems for investigating and defining protein and genetic networks, discovering new gene functions, and uncovering the functional consequences of human genome variation. The Alliance of Genome Resources (aka, the Alliance) is a consortium of seven model organism databases (MODs; Drosophila, C. elegans, budding yeast, zebrafish, laboratory mouse, laboratory rat, Xenopus) and the Gene Ontology Consortium (GOC) with a shared mission of facilitating use of biological insights from model organisms to understand the genetic and genomic basis of human health and disease. The Alliance seeks to serve a diverse community of biomedical researchers including basic scientists, clinicians, and data scientists. The Alliance is organized as two interdependent units: Alliance Central and Alliance Knowledge Centers. Alliance Central serves as a software platform developed using modular infrastructure and common data models to and for the coordination of data harmonization and data modeling activities across the Knowledge Centers. Alliance Knowledge Centers including MODs and the GOC are responsible for expert curation and for submission of annotations to Alliance Central using community standards for knowledge representation. Alliance Central represents a next generation extensible software platform for knowledgebases capable of adapting to the rapidly changing data landscape and conforming to modern standards for data management. Alliance Central provides the biomedical research community with unprecedented support for comparative genomics via unified user interfaces and APIs for common data types and promotes sustainability and operational efficiencies of core biodata resources. This U24 application describes the plans for the enhancement and management of Alliance Central building on the significant accomplishments of the Alliance consortium since it was launched in 2016. The focus for Specific Aim 1 will be on expanding the Alliance Central infrastructure for ingesting, storing, and accessing the harmonizing biological annotations from contributing Knowledge Centers. We will continue software development practices that reflect our long-standing commitment to data management practices that align with FAIR (Findable, Accessible, Interoperable, Reusable) principles. In Specific Aim 2 we describe our plans to continue development of a state of the art literature curation system that can be adapted for use by a wide range of biomedical model organism databases. The deliverables for this aim will include the incorporation of machine learning, natural language processing, and artificial intelligence designed to enhance scalability and efficiency of expert curation. In Specific Aim 3 we describe our plans for implementation and/or adoption of user interfaces that advance the mission of the Alliance to facilitate comparative genomics to gain insights into the function of the human genome. Finally, in Specific Aim 4, we describe the management and organization of the Alliance as well as extensive activities for user support and community engagement.


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: 2024 ( Subtotal = $5,241,011 )
2024	2024	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	000	6	9/12/2024	COMPETING CONTINUATION	$5,241,011
														Subtotal = $5,241,011

Issue Date FY: 2023 ( Subtotal = $5,805,811 )
2023	2023	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	001	5	8/14/2023	SUPPLEMENT FOR EXPANSION	$810,839
2023	2023	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	000	5	8/10/2023	NON-COMPETING CONTINUATION	$4,994,972
														Subtotal = $5,805,811

Issue Date FY: 2022 ( Subtotal = $5,119,404 )
2022	2022	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Trans-NIH Research Support	002	4	8/15/2022	SUPPLEMENT FOR EXPANSION	$119,564
2022	2022	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	001	4	8/12/2022	NON-COMPETING CONTINUATION	$4,999,840
2022	2021	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	000	3	10/21/2021	NON-COMPETING CONTINUATION	$0
														Subtotal = $5,119,404

Issue Date FY: 2021 ( Subtotal = $5,453,392 )
2021	2021	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Trans-NIH Research Support	001	3	9/10/2021	SUPPLEMENT FOR EXPANSION	$193,913
2021	2021	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Trans-NIH Research Support	002	3	9/11/2021	SUPPLEMENT FOR EXPANSION	$259,479
2021	2021	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	000	3	8/16/2021	NON-COMPETING CONTINUATION	$5,000,000
														Subtotal = $5,453,392

Issue Date FY: 2020 ( Subtotal = $5,404,469 )
2020	2020	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	002	2	8/11/2020	SUPPLEMENT FOR EXPANSION	$404,470
2020	2020	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	001	2	8/10/2020	NON-COMPETING CONTINUATION	$4,999,999
2020	2019	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	000	1	12/9/2019	NEW	$0
														Subtotal = $5,404,469

Issue Date FY: 2019 ( Subtotal = $5,000,000 )
2019	2019	CALIFORNIA INSTITUTE OF TECHNOLOGY	1200 E CALIFORNIA BLVD	PASADENA	CA	91125	LOS ANGELES	USA	Human Genome Research	000	1	9/18/2019	NEW	$5,000,000
														Subtotal = $5,000,000

Grand Total All Awards = $32,024,087

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Alliance Central: A platform for sustainable development of next generation genome knowledgebases

Award Number: U24HG010859

ORGANIZATION: NATIONAL HUMAN GENOME RESEARCH INSTITUTE

OPDIV: NIH

AWARD CLASS: COOPERATIVE AGREEMENT

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

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