Genomic Analysis, Visualization and Informatics Lab-space (AnVIL)

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Overview
AnVIL Awards
Project Sites
External Consultant Committee
NIH Cloud Platforms Interoperability
Genomic Data Science Community Network
AnVIL Cloud Credits Program

Funding Opportunities
AnVIL in the News
Events
Contacts
Staff
Related Content

Overview

The NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL) is a cloud-based genomic data sharing and analysis platform. AnVIL facilitates integration and computing on and across large datasets generated by NHGRI programs, as well as initiatives funded by National Institutes of Health (NIH), or by other agencies that support human genomics research. AnVIL is a component of the emerging federated data ecosystem and actively collaborates and integrates with other genomic data resources through the adoption of the FAIR (Findable, Accessible, Interoperable, Reusable) principles. AnVIL provides a collaborative environment and interfaces for consortia and researchers. AnVIL offers training and functionality for users that have limited computational expertise as well as sophisticated data scientist users.

Specifically, the AnVIL resource provides genomic researchers with the following key elements:

Cloud-based infrastructure and software platform
Shared analysis and computing environment
Interoperability and compliance with the emerging federated data ecosystem
Cloud services cost control
Genomic datasets, phenotypes and metadata
Data access and data security
User training and outreach
Incorporation of scientific and technology advance for storing, accessing, sharing and computing on large genomic datasets

View: A Summary of Accomplishments as of April 2022

Launch AnVIL: AnVIL Project Portal

Overview
The NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL) is a cloud-based genomic data sharing and analysis platform. AnVIL facilitates integration and computing on and across large datasets generated by NHGRI programs, as well as initiatives funded by National Institutes of Health (NIH), or by other agencies that support human genomics research. AnVIL is a component of the emerging federated data ecosystem and actively collaborates and integrates with other genomic data resources through the adoption of the FAIR (Findable, Accessible, Interoperable, Reusable) principles. AnVIL provides a collaborative environment and interfaces for consortia and researchers. AnVIL offers training and functionality for users that have limited computational expertise as well as sophisticated data scientist users.
Specifically, the AnVIL resource provides genomic researchers with the following key elements:
Cloud-based infrastructure and software platform
Shared analysis and computing environment
Interoperability and compliance with the emerging federated data ecosystem
Cloud services cost control
Genomic datasets, phenotypes and metadata
Data access and data security
User training and outreach
Incorporation of scientific and technology advance for storing, accessing, sharing and computing on large genomic datasets

View: A Summary of Accomplishments as of April 2022
Launch AnVIL: AnVIL Project Portal

Data Use Oversight System (DUOS)

DUOS is a semi-automated study registration and DAR management service informed by the GA4GH DUO standard, which enables the secondary use of human genomics and other controlled-access data in compliance with the informed consent of a study’s participants. Multiple NIH DACs piloted the system through several rounds of testing. Researchers can now use DUOS to request access to NHGRI’s AnVIL controlled-access datasets. A list of available datasets can be found in the DUOS Data Library.

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AnVIL Awards

Applications were submitted in response to the two NHGRI AnVIL Notice of Funding Opportunities (NOFOs): RFA-HG-22-020 and RFA-HG-22-021 and three awards were made.

Expanding the AnVIL Data Ecosystem - U24HG010262

Data Sciences Platform, Broad Institute: Jonathan Lawson (contact PI), Anthony Philippakis (PI), Clare Bernard (PI)
Genomics Institute, University of California Santa Cruz: Benedict Paten (PI)
Vanderbilt University Medical Center: Robert Carroll (PI)

Expanding the AnVIL (Analysis, Visualization, and Informatics Lab-Space) - U24HG010263

Department of Biology, Johns Hopkins University: Michael Schatz (contact PI), Enis Afgan (PI), Casey Taylor (PI)
Department of Biomedical Engineering, Oregon Health & Sciences University: Jeremy Goecks (PI), Kyle Ellrott (PI)
Huck Institute of the Life Sciences, Pennsylvania State University: Anton Nekrutenko (PI)
Department of Embryology, Carnegie Institution: Frederick Tan (PI)
Fred Hutchison Cancer Center: Ava Hoffman (PI), Jeffery Leek (PI)
Department of Medicine, Brigham & Women’s Hospital: Vincent Carey (PI)
Institute for Implementation Science in Population Health, City University of New York: Levi Waldron (PI)

The AnVIL Clinical Environment for Innovation and Translation (ACE-IT) - U24HG1013233

Vanderbilt University Medical Center: Robert Carroll (contact PI)
Brigham and Women's Hospital: Matthew Lebo (PI)

Project Sites

Anvil project sites

External Consultant Committee

The External Consultant Committee (ECC) is a non-governing entity comprising a multidisciplinary panel of experts who will assist the National Human Genome Research Institute (NHGRI) in assessing the AnVIL.

Members of the ECC are:

Karen M. Davis, M.S. (co-chair) | RTI International
Siddharth Pratap, Ph.D., M.S. (co-chair) | Meharry Medical College
Cinnamon Bloss, Ph.D. | University of California, San Diego
Carol Bult, Ph.D. | Jackson Laboratory
Sean Davis, M.D., Ph.D. | University of Colorado Denver
Aleksandar Milosavljevic, Ph.D. | Baylor College of Medicine
Adam Resnick, Ph.D. | Children’s Hospital of Philadelphia
Marylyn Ritchie, Ph.D. | University of Pennsylvania
Shannon McWeeney, PH.D. | OHSU Knight Cancer Institute
Dustin Baldridge, M.D., Ph.D. | Washington University School of Medicine

NIH Cloud Platforms Interoperability

The NIH Cloud Platforms Interoperability (NCPI) effort is working to enable cross-platform authentication and authorization, data discovery and the exchange of datasets, analysis workflows and results to support the creation of a federated genomic data ecosystem. NCPI is a collaboration between NIH representatives, platform team members and researchers running cross-platform research efforts to inform and validate the interoperability approaches.

Learn more about the NIH Cloud Platform Interoperability Effort.

Genomic Data Science Community Network

The Genomic Data Science Community Network (GDSCN) is a partnership of educators and researchers at Historically Black Colleges and Universities (HBCUs), Minority Serving Institutions (MSIs), Tribal Colleges and Universities (TCUs), and Community Colleges (CCs) with members of the AnVIL team to broaden the spectrum of diverse institutions active in bioinformatics and genomic data science research.

Learn more about the Genomic Data Science Community Network.

AnVIL Cloud Credits Program

The AnVIL Cloud Credits (AC2) Program was extended with the AnVIL Cloud Credits Continued Program (AC3). Applications were accepted and awarded in early 2022 proposing research or training projects relevant to NHGRI’s mission using AnVIL for large-scale data analysis with cloud computing credits.

Funding Opportunities

Expired

RFA-HG-22-020: Limited Competition: The NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL) (U24 Clinical Trial Not Allowed)

RFA-HG-22-021: The NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space Clinical Resource (ACR) (U24 Clinical Trial Not Allowed)

AnVIL in the News

AnVIL Platform Makes Popular NHGRI GTEx Database Free to Download
Genomeweb, December 23, 2020
AnVIL Community Updates
Inverting the model of genomics data sharing with the NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space
Cell, January 12, 2022
The Complete Sequence of a human Y chromosome Nature, August 23, 2023
- Researchers assemble the first complete sequence of a human Y chromosome (genome.gov)

Events

AnVIL offers a variety of informational events including demos on functionality, Q&A sessions and interactive opportunities to talk about bringing data onto the platform, presentations, workshops, community conferences, and more.

Current Events: https://anvilproject.org/events

NHGRI Organized Informational Sessions: