- AnVIL Mailing List - lists.anvilproject.org

[AnVIL] Introducing the All of Us + AnVIL Imputation Service
by Natalie Kucher 25 Aug '25

25 Aug '25

Dear AnVIL Community, We are excited to share that the All of Us + AnVIL imputation service is now available! This service allows researchers to leverage a diverse reference panel of genomes from over 515,000 participants from the All of Us Research Program and AnVIL Center for Common Disease Genomics, including more than 250,000 genomes from non-European inferred genetic ancestries. This valuable asset will allow researchers to enhance their datasets with greater accuracy. Learn more in this blog post published today: https://terra.bio/introducing-the-all-of-us-anvil-imputation-service/. Best regards, The AnVIL Team https://anvilproject.org

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[AnVIL] ⏳Only 1 Week Left to Register for the AnVIL Community Conference 2025!
by Natalie Kucher 12 Aug '25

12 Aug '25

Calling all genomic researchers, data scientists, and cloud computing enthusiasts! There's just one week left to secure your spot at the upcoming AnVIL Community Conference 2025, taking place September 3–5, 2025, in beautiful Nashville, TN at Vanderbilt University Medical Center. Why attend? * Hear from leaders in genomic cloud computing through insightful scientific talks * Present your work in a talk or at the poster session * Participate in the hands-on CoFest (Collaboration Fest) with training for running analyses on AnVIL * Find out more and see the agenda here: https://bit.ly/acc2025 ‼️ In-person registration closes on August 19, 2025. Sign up before the deadline! * Full (in-person, $75): https://bit.ly/acc2025-register * Student (in-person, $25): https://bit.ly/acc2025-register-student * Virtual (Free!): https://bit.ly/acc2025-register-virtually Don’t miss your chance to learn, collaborate, and connect with the AnVIL community. Whether you're looking to present your research, engage in interactive workshops, or network with peers, this is your chance to unlock the power of AnVIL. Looking forward to seeing you in Nashville! -- Natalie Kucher / Project Manager Johns Hopkins University, Department of Biology Krieger School of Arts & Sciences e: nkucher3(a)jhu.edu<mailto:nkucher3@jhu.edu> / AnVIL<https://anvilproject.org/> / Galaxy<https://galaxyproject.org/> / GDSCN<https://www.gdscn.org/>

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[AnVIL] ACC2025: Registration is now open!
by Natalie Kucher 11 Jul '25

11 Jul '25

Hi AnVIL Community, We’re excited to announce that registration for the AnVIL Community Conference 2025 is now LIVE! Register today and take advantage of our group room rates before they expire. We’ll be in Nashville, TN on September 3-5, 2025 for some great talks, poster sessions, and a collaborative CollaboartionFest (CoFest) focusing on cloud computing with AnVIL and genomic data science opportunities. Learn more about the plans for ACC2025 here: https://bit.ly/anvil2025. 🎉 Registration Here’s how you can register: * Full registration ($75): https://bit.ly/acc2025-register * Student registration ($25): https://bit.ly/acc2025-register-student * Virtual registration (free): https://bit.ly/acc2025-register-virtually 🧑‍💻 Abstract submission Abstract submission is also OPEN! Please submit an abstract for a selected talk or to present your work as a poster with the community at ACC2025. * Submission form: https://bit.ly/acc2025-abstract 🏨 Accommodations Don’t forget to make your hotel reservations nearby! These room blocks will be available for the next few weeks. Hotel: Nashville Marriott at Vanderbilt University Address: 2555 West End Avenue (6 min walk) Price: $224+ per night Hold expires: August 4, 2025 Book your room through this link: https://bit.ly/acc2025-marriott Hotel: Embassy Suites Address: 1811 Broadway (15-20 min walk) Price: $189+ per night Hold expires: July 25, 2025. Book your room through this link: https://bit.ly/acc2025-hilton OR Call Hilton’s toll-free number: 1-800-HILTONS and provide your Reservations Group Code– 91H We look forward to seeing you at ACC2025! Best, Natalie -- Natalie Kucher / Project Manager Johns Hopkins University, Department of Biology Krieger School of Arts & Sciences e: nkucher3(a)jhu.edu<mailto:nkucher3@jhu.edu> / AnVIL<https://anvilproject.org/> / Galaxy<https://galaxyproject.org/> / GDSCN<https://www.gdscn.org/>

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[AnVIL-mailing-list] Save The Date: AnVIL Community Conference 2025 is in Nashville, TN this September!
by Natalie Kucher 01 May '25

01 May '25

Dear AnVIL Community, We are excited to announce that registration is now open for the inaugural AnVIL Community Conference (ACC2025), scheduled for September 4-5, 2025, in Nashville, TN. This is a unique opportunity to connect in person with fellow professionals from the genomics community who share an interest in biomedical and genomic cloud computing. The AnVIL Community Conference will feature: * Scientific Talks: Engage with speakers showcasing the latest advancements on the AnVIL platform. * Poster Sessions: Present your work in genomics and cloud computing with the conference community. * Collaboration Fest (CoFest): Collaborate and innovate during our Collaboration Fest, with hands-on training on running analyses in AnVIL and opportunities to bring your own research questions. We would love the chance to meet you in person and share in this enriching blend of instruction, collaboration, and cutting-edge scientific discourse. ℹ️ For more details and to register, please visit the conference webpage: bit.ly/anvil2025. We look forward to seeing you in September! Best regards, Natalie Kucher on behalf of the AnVIL Team -- Natalie Kucher / Project Manager Johns Hopkins University, Department of Biology Krieger School of Arts & Sciences e: nkucher3(a)jhu.edu<mailto:nkucher3@jhu.edu> / AnVIL<https://anvilproject.org/> / Galaxy<https://galaxyproject.org/> / GDSCN<https://www.gdscn.org/> -- Manage your subscription to the AnVIL Mailing List at: https://lists.anvilproject.org/lists/anvil-mailing-list.lists.anvilproject.….

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[AnVIL-mailing-list] 📢 Participate in the State of the AnVIL 2025 Community Poll!
by Natalie Kucher 02 Apr '25

02 Apr '25

Dear AnVIL Community, Your contribution is essential in shaping the AnVIL platform, and we are excited to invite you to participate in our State of the AnVIL Community Poll! Your insights are invaluable as we strive to enhance the AnVIL experience for all users. By taking a few minutes to complete this poll, you'll be playing a crucial role in influencing the direction of our platform and ensuring it meets the diverse needs of our community. Take the poll here: https://bit.ly/sota2025 Why participate? 1. Voice Your Opinion: This is your chance to share your experience with biomedical data science, how you use AnVIL, and let us know what matters most to you. 2. Community Collaboration: Your feedback will contribute to a collaborative effort in making AnVIL a more powerful and user-friendly platform for everyone. 3. Future Development: Help us prioritize future developments and enhancements based on the needs and preferences of our diverse user community. How to Participate: 1. Click the following link: https://bit.ly/sota2025 2. Complete the brief poll. We estimate it will take 10-15 minutes in total. 3. Submit your responses and become an integral part of shaping the AnVIL Platform's future. Optionally enter a drawing for a $50 or $25 gift card! We appreciate your time and commitment to making AnVIL the best it can be. Your feedback is crucial, and we look forward to hearing your thoughts. Thank you for being a valued member of the AnVIL community! Best regards, The AnVIL Team -- Natalie Kucher / Project Manager Johns Hopkins University, Department of Biology Krieger School of Arts & Sciences e: nkucher3(a)jhu.edu<mailto:nkucher3@jhu.edu> / AnVIL<https://anvilproject.org/> / Galaxy<https://galaxyproject.org/> / GDSCN<https://www.gdscn.org/>

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[AnVIL-mailing-list] New Funding Opportunity for Research on AnVIL
by Natalie Kucher 18 Dec '24

18 Dec '24

Dear AnVIL Community, We are excited to share a newly published NIH funding opportunity called “Enhancing Reuse of NHGRI Data Assets<https://grants.nih.gov/grants/guide/rfa-files/RFA-HG-25-005.html>”. These R03 awards will support researchers seeking to analyze NHGRI-hosted datasets in AnVIL for novel research questions, analyses across studies, or analyses combining these data with new datasets. Pre-application webinars describing the funding opportunity and open time for Q&A will be hosted in the coming weeks. Applications will open on January 14, 2025. Read more about the funding opportunity here: https://grants.nih.gov/grants/guide/rfa-files/RFA-HG-25-005.html. Any questions? Reach out to the Program Scientific Contact: Shurjo K. Sen, Ph.D. (sensh(a)mail.nih.gov<mailto:sensh@mail.nih.gov>). Best, Natalie -- Natalie Kucher / Project Manager Johns Hopkins University, Department of Biology Krieger School of Arts & Sciences e: nkucher3(a)jhu.edu<mailto:nkucher3@jhu.edu> / AnVIL<https://anvilproject.org/> / Galaxy<https://galaxyproject.org/> / GDSCN<https://www.gdscn.org/>

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[AnVIL-mailing-list] Decomissioning Gen3 GTEx V8 free downloads [AnVIL]
by Jonathan Lawson 17 Sep '24

17 Sep '24

Dear AnVIL Users, We want to make you aware that *starting October 1, 2024, the AnVIL Gen3 Commons and free downloadable version of GTEx v8 through Gen3 will be decommissioned*. Going forward, the AnVIL Data Explorer <https://explore.anvilproject.org/datasets>, which hosts over 250 AnVIL datasets will be the best path for accessing GTEx data through AnVIL. Details on the anticipated scope of impact are described below. Scope of impact 1. Users will no longer be able to download GTEx v8 for free, and downloads will be subject to Google Cloud Platform egress fees. However, GTEx v8 will still be available for analysis on AnVIL on Terra with access via either the AnVIL Data Explorer or AnVIL Dataset Catalog. 2. See the help articles linked here for more information on how to access data through the Explorer or Terra. 3. Data export as PFBs from https://gen3.theanvil.io/ to Cavatica and Terra will no longer be available. 4. Access to data via DRS from https://gen3.theanvil.io/ will stop. 5. Existing DRS URIs minted by AnVIL Gen3 will be resolvable and accessible in Terra and by external systems when AnVIL RAS is available. If you believe that this change will impact your work, please don’t hesitate to reach out to anvil-data(a)broadinstitute.org or the AnVIL Support Forum. We appreciate your patience and understanding. Thank you, The AnVIL Team

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[AnVIL-mailing-list] Join us at the AnVIL Community Conference this November - Registration Now Open!
by Stephen Mosher 28 Aug '24

28 Aug '24

Dear AnVIL Community, We are excited to announce that registration is now open for the inaugural AnVIL Community Conference (ACC24), scheduled for November 12-13, 2024, at Cold Spring Harbor, NY. This is a unique opportunity to connect in person with fellow professionals from the genomics community who share an interest in biomedical and genomic cloud computing. ACC24 precedes the Biological Data Science<https://meetings.cshl.edu/meetings.aspx?meet=DATA&year=24> meeting at Cold Spring Harbor (November 13-16) which requires separate registration. We believe this event will be highly relevant to AnVIL Community Conference attendees. The AnVIL Community Conference will feature: Scientific Talks: Hear from distinguished speakers including Anshul Kundaje, Michael Schatz, Tychele Turner, and Benedict Paten, as they showcase the latest advancements on the AnVIL platform. Workshop: Engage in a hands-on training session led by the AnVIL team, combining informative presentations with practical instruction. Collaboration Fest (CoFest): Collaborate and innovate with peers during our CoFest, and share your discoveries with the community at the conference's conclusion. We would love the chance to meet you in person and share in this enriching blend of instruction, collaboration, and cutting-edge scientific discourse. For more details and to register, please visit the conference webpage: AnVIL 2024 Community Conference<https://anvilproject.org/events/anvil2024-community-conference>. We look forward to seeing you in November! Best regards, Stephen Mosher ______________________________ Stephen Mosher | Project Manager Johns Hopkins University Department of Biology Krieger School of Arts & Sciences stephen.mosher(a)jhu.edu<mailto:stephen.mosher@jhu.edu> https://anvilproject.org/

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[AnVIL-mailing-list] Sign up for our next AnVIL Demo: Teaching on AnVIL on April 18
by Natalie Kucher 08 Apr '24

08 Apr '24

[A blue and white logo Description automatically generated] Sign up for our next AnVIL Demo! Teaching on AnVIL April 18, 2024 at 11:00 AM EDT (your time zone<https://www.timeanddate.com/worldclock/fixedtime.html?msg=AnVIL+Demos&iso=2…>) on Zoom 11:00 AM - 11:30 AM EDT– Demo on AnVIL In this demo, Natalie Kucher from Johns Hopkins University will describe how AnVIL can be used in the classroom as a platform for teaching and analysis, the advantages of using AnVIL with students, and the AnVIL Outreach team’s best practices available in the AnVIL Instructor Guide (https://jhudatascience.org/AnVIL_Book_Instructor_Guide/) 11:30 AM - 12:00 PM EDT – Q&A We’ll open up the floor to answer questions about the demo or any general questions about AnVIL you might have! ✏️ Sign up: https://forms.gle/7CcaLE9AM7FrYqpP7 What are AnVIL Demos? AnVIL Demos are a monthly, virtual meeting where we highlight what you can do on the NHGRI<https://www.genome.gov/> Analysis, Visualization, and Informatics Lab-space (AnVIL<https://anvilproject.org/>), a cloud-based computing platform for genomic data science! AnVIL Demos will start out with a 30-minute demonstration on the platform followed by open time for Q&A and user support. The demos will highlight a range of topics, from a capability of the platform to a scientific analysis powered by AnVIL. If you’re interested in showcasing how you use AnVIL at a future AnVIL Demos session, reach out to Natalie Kucher (nkucher3(a)jhu.edu<mailto:nkucher3@jhu.edu>). After the demo, we’ll open up the floor to answer questions about the demo and to answer any general questions you might have about AnVIL. Watch our past Demos from our YouTube playlist<https://www.youtube.com/playlist?list=PL6aYJ_0zJ4uC978C57P3TgAAfB38uy58E>! ✏️ Sign up for more demos: https://forms.gle/7CcaLE9AM7FrYqpP7 Resources * AnVIL Getting Started Guide. An opinionated guide on how to get set up and start your work on AnVIL. Get started here<https://jhudatascience.org/AnVIL_Book_Getting_Started/>. * AnVIL YouTube Channel. Learn about AnVIL capabilities and features with our “AnVIL in 2 minutes” videos. Watch AnVIL in 2 minutes here<https://www.youtube.com/playlist?list=PL6aYJ_0zJ4uCABkMngSYjPo_3c-nUUmio> or watch past AnVIL Demos here<https://www.youtube.com/playlist?list=PL6aYJ_0zJ4uC978C57P3TgAAfB38uy58E>. * AnVIL Support Forum. Join the conversation at help.anvilproject.org<http://help.anvilproject.org/>. Upcoming Events Sign up to hear about future AnVIL Demos and announcements at bit.ly/anvil-mailing-list<http://bit.ly/anvil-mailing-list> and learn about upcoming events at https://anvilproject.org/events!

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[AnVIL-mailing-list] Days left to share your ideas! 📢 State of the AnVIL 2024 Community Poll
by Natalie Kucher 13 Mar '24

13 Mar '24

Dear AnVIL Community, Your contribution is essential in shaping the future of the AnVIL platform, and we are excited to invite you to participate in our State of the AnVIL Community Poll! The poll is open for a few more days, so take a few minutes now to share your thoughts! Your insights and preferences are invaluable as we strive to enhance the AnVIL experience for all users. By taking a few minutes to complete this poll, you'll be playing a crucial role in influencing the direction of our platform and ensuring it meets the diverse needs of our community. Take the poll here: https://bit.ly/sota2024 Why participate? 1. Voice Your Opinion: This is your chance to share your experience with biomedical data science, how you use AnVIL, and let us know what matters most to you. 2. Community Collaboration: Your feedback will contribute to a collaborative effort in making AnVIL a more powerful and user-friendly platform for everyone. 3. Future Development: Help us prioritize future developments and enhancements based on the needs and preferences of our diverse user community. How to Participate: 1. Click the following link: https://bit.ly/sota2024 2. Complete the brief poll. We estimate it will take 10-15 minutes in total. 3. Submit your responses and become an integral part of shaping the AnVIL Platform's future. Optionally enter a drawing for training with our team and more! We appreciate your time and commitment to making AnVIL the best it can be. Your feedback is crucial, and we look forward to hearing your thoughts. Thank you for being a valued member of the AnVIL community! Best regards, The AnVIL Team

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