AG2PI Community Workshop #3 - February 9, 2022

Harnessing the Ag Genomics Data Torrent: A Community-driven Discussion on Best Practices for Using and Reusing Genomics Data

February 9, 2022 @ 10:00 AM - 12:00 PM (US Central Time)
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February 9, 2022
10:00 AM - 12:00 PM
(US Central Time)


Learn of various solutions for genomics data usage and share ideas for improving data inputs and tools.


(Virtual Zoom Meeting)

Register for the virtual event by clicking the link below. Upon registration, you will receive a confirmation email with information about joining the meeting

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Community Workshop Recording

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The livestock and crop communities are accelerating the creation of functional genomics data to uncover the link between genotype and phenotype. AG2PI is striving to identify the critical requirements to accelerate such research across these communities. We have identified an important current and future requirement for this advancement is better methods for integrating disparate datatypes to allow new insights. For example, one specific goal of functional genomics is to predict regulatory elements across cells, tissues, individuals and populations. Tools are needed to easily help gather raw data, create processed files and visualize the results of further analysis, such as a web-browser display of chromatin state maps, to extend the availability of such data to many more groups.

In this workshop, we will hear from speakers describing current solutions to data visualization and reuse in several genomics communities, as well as discuss as a group the paths to nurture a sustainable set of such tools. Our discussion is intended to include improving, standardizing and maintaining inputs (data and metadata), as well as creating, enhancing and supporting tools for mining such data. Following the presentations, a roundtable discussion will be held on what is next and how to organize to create data reuse tools.

Worshop Speakers and Presentations

10:00 - 10:25 AM
Dr. Zhiping Weng

Web-based tools for user access to a registry of regulatory elements in human and mouse

10:25 - 10:40 AM
Dr. Leonore Reiser
Data Wrangler

The AgBioData Research Coordination Network: Ensuring FAIR agricultural data through community-based standards

The AgBioData Consortium was founded in 2015 with the aim of enabling agricultural data community members to work together to identify issues in data curation and management, with the goal of ensuring that data are more Findable, Accessible, Interoperable and Reusable (FAIR). In 2021 we received funding from the National Science Foundation for a Research Coordination Network grant aimed at making agricultural GGB data easier to find and use, and available for the long-term. We will achieve this via working groups, who will make recommendations for standards and best practices, and disseminate those recommendations via white papers and a FAIR data management educational curriculum for agricultural researchers.

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10:40 - 10:55 AM
Dr. Peter Harrison
Genome Analysis Team Leader

The FAANG data portal: current and future perspectives

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10:55 - 11:10 AM
Alenka Hafner

The reuse of public datasets: Potential risks and rewards from a student's perspective

The benefits of public data reuse outweigh the risks and we, as a community, must establish rigorous data and experimental standards to enable successful future reuse.

11:10 - 11:25 AM
Dr. Christine Elsik

Making FAANG Data Reuseable in FAANGmine

FAANGMine, a genomic data mining warehouse for domesticated animal species, aims to facilitate exploration and reuse of data generated by the Functional Annotation of Animal Genomes (FAANG) Consortium. This presentation will show how FAANGMine leverages the FAANG data and metadata from the FAANG Data Portal, EBI and NCBI.

11:25 - 12:00 PM

Roundtable Discussion on what is next and how to organize participants to create data reuse tools. (Co-Chairs: James Koltes and Chris Tuggle)