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Ag Data Commons migration begins October 18, 2023

The Ag Data Commons is migrating to a new platform – an institutional portal on Figshare. Starting October 18 the current system will be available for search and download only. Submissions will resume after the launch of our portal on Figshare in November. Stay tuned for details!

i5k Workspace

About the i5k Workspace@NAL

The i5k Workspace (https://i5k.nal.usda.gov) is an inclusive genome portal for any arthropod genome project that would like to make use of our resources. We provide download services, BLAST, the JBrowse genome browser, and the Apollo manual curation service. Over 50 arthropod genomes are now part of the i5k Workspace, and users are encouraged to browse the genomes that we host, and contribute to the curation of each genome. For more information about the i5k Workspace, you can read our paper on the i5k Workspace, view our posters and talks, and find our software projects on github. The Ag Data Commons is now hosting a growing number of i5k Workspace datasets.

About the i5k initiative

The i5k initiative is a transformative project that aims to sequence and analyze the genomes of 5,000 arthropod species. The National Agricultural Library has partnered with the i5k initiative to create the i5k Workspace@NAL, which serves any ‘orphaned’ arthropod genome project's hosting needs. For more information about the i5k initiative, read the paper and visit the website.

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i5k Datasets

114 datasets

Drosophila eugracilis genome assembly Deug05112011

    This research on Drosophila eugracilis genomics is part of the Drosophila modENCODE project. The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. The genome assembly presented here is the pre-submission version of Deug_2.0, which is archived at the National Center for Biotechnology as GCA_000236325.2.

    Drosophila rhopaloa genome annotations v0.5.3 for genome assembly Drho05162011

      This research on Drosophila rhopaloa genomics is part of the Drosophila modENCODE project.The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. RNA-Seq data were used with additional protein homology data for a MAKER automated annotation of the Drosophila rhopaloa genome assembly Drho05162011. This gene set is an unstable pre-release (v0.5.3), and is provided to facilitate manual curation and analyses. Gene identifiers from this gene set will not be maintained.

      Drosophila rhopaloa genome assembly Drho05162011

        This research on Drosophila rhopaloa genomics is part of the Drosophila modENCODE project. The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. The genome assembly presented here is the pre-submission version of Drho_2.0, which is archived at the National Center for Biotechnology as GCA_000236305.2.

        Drosophila kikkawai genome annotations v0.5.3 for genome assembly Dkik02082011

          This research on Drosophila kikkawai genomics is part of the Drosophila modENCODE project.The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. RNA-Seq data were used with additional protein homology data for a MAKER automated annotation of the Drosophila kikkawai genome assembly Dkik02082011. This gene set is an unstable pre-release (v0.5.3), and is provided to facilitate manual curation and analyses. Gene identifiers from this gene set will not be maintained.

          Drosophila kikkawai genome assembly Dkik02082011

            This research on Drosophila kikkawai genomics is part of the Drosophila modENCODE project. The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. The genome assembly presented here is the pre-submission version of Dkik_2.0, which is archived at the National Center for Biotechnology as GCA_000224215.2.

            Drosophila elegans genome annotations v0.5.3 for genome assembly Dele02082011

              This research on Drosophila elegans genomics is part of the Drosophila modENCODE project.The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. RNA-Seq data were used with additional protein homology data for a MAKER automated annotation of the Drosophila elegans genome assembly Dele02082011. This gene set is an unstable pre-release (v0.5.3), and is provided to facilitate manual curation and analyses. Gene identifiers from this gene set will not be maintained.

              Drosophila takahashii genome assembly Dtak02082011

                This research on Drosophila takahashii genomics is part of the Drosophila modENCODE project. The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. The genome assembly presented here is the pre-submission version of Dtak_2.0, which is archived at the National Center for Biotechnology as GCA_000224235.2.

                Drosophila takahashii genome annotations v0.5.3 for genome assembly Dbip02082011

                  This research on Drosophila takahashii genomics is part of the Drosophila modENCODE project.The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. RNA-Seq data were used with additional protein homology data for a MAKER automated annotation of the Drosophila takahashii genome assembly Dtak02082011. This gene set is an unstable pre-release (v0.5.3), and is provided to facilitate manual curation and analyses. Gene identifiers from this gene set will not be maintained.

                  Drosophila elegans genome assembly Dele02082011

                    This research on Drosophila elegans genomics is part of the Drosophila modENCODE project. The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. The genome assembly presented here is the pre-submission version of Dele_2.0, which is archived at the National Center for Biotechnology as GCA_000224195.2.

                    Drosophila bipectinata genome assembly Dbip02082011

                      This research on Drosophila bipectinata genomics is part of the Drosophila modENCODE project. The Baylor College of Medicine is studying the comparative genomics of eight species of Drosophila, including biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii. The genome assembly presented here is the pre-submission version of Dbip_2.0, which is archived at the National Center for Biotechnology as GCA_000236285.2.