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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

Lucilia cuprina genome annotations v0.5.3

    This dataset presents the Lucilia cuprina gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Lucilia cuprina genome assembly 1.0. This dataset is free for all use.

    Anoplophora glabripennis genome annotations v0.5.3

      This dataset presents the Anoplophora glabripennis gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Anoplophora glabripennis genome assembly 1.0.

      Athalia rosae mitochondrial genome assembly

        The Baylor College of Medicine has sequenced and annotated the Athalia rosae genome as part of the i5k pilot project. This dataset represents a separate targeted assembly of the mitochondrial genome.

        Orussus abietinus mitochondrial genome assembly

          The Baylor College of Medicine has sequenced and annotated the Orussus abietinus genome as part of the i5k pilot project. This dataset represents a targeted assembly and annotation of the mitochondrial genome.