open-data-registry/datasets/alliance-genome-resources.yaml at main · awslabs/open-data-registry · GitHub

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Name: Alliance of Genome Resources
Description: The Alliance of Genome Resources is a consortium that integrates genomic, genetic, and molecular data from leading model organism databases including Drosophila melanogaster, Caenorhabditis elegans, Danio rerio (zebrafish), Mus musculus (mouse), Rattus norvegicus (rat), Saccharomyces cerevisiae (yeast), Xenopus laevis and Xenopus tropicalis (frogs), and human reference data. The Alliance provides comprehensive datasets including gene annotations, disease associations, expression data (bulk and single-cell RNA-Seq), protein and genetic interactions, orthology relationships, variants and alleles, and complete genome sequences with annotations. Data is organized into Alliance-wide integrated datasets and organism-specific collections, supporting comparative genomics, disease modeling, and functional genomics research.
Documentation: https://github.com/alliance-genome/agr_open_data
Contact: help@alliancegenome.org
ManagedBy: Alliance of Genome Resources Consortium
UpdateFrequency: Quarterly releases (every ~3 months)
Tags:
  - aws-pds
  - genomic
  - bioinformatics
  - biology
  - gene expression
  - life sciences
  - genetic
  - genome
  - Drosophila melanogaster
  - Caenorhabditis elegans
  - Danio rerio
  - Mus musculus
  - Rattus norvegicus
  - Homo sapiens
  - transcriptomics
  - protein
  - vcf
  - fasta
License: Most Alliance data is available under CC0 1.0 Universal (Public Domain Dedication). Some datasets may use CC-BY 4.0 (attribution required). Full details at https://www.alliancegenome.org/terms-of-use
Citation: Alliance of Genome Resources Consortium. Alliance of Genome Resources Portal - unified model organism research platform. Nucleic Acids Research (2023). https://doi.org/10.1093/nar/gkac1003
Resources:
  - Description: Alliance-wide integrated datasets including disease associations, gene expression, molecular and genetic interactions, orthology relationships, gene descriptions, and variants across all Alliance organisms. Data is organized by release version (8.3.0/, 8.2.0/, etc.), then by data type, with organism-specific collections for FB (FlyBase/Drosophila), MGI (Mouse), RGD (Rat), SGD (Yeast), WB (Worm), XBXL/XBXT (Xenopus), ZFIN (Zebrafish), and HUMAN reference data. Available in TSV, JSON, and VCF formats.
    ARN: arn:aws:s3:::alliance-genome-downloads
    Region: us-east-1
    Type: S3 Bucket
    Explore:
      - '[Browse Bucket](https://alliance-genome-downloads.s3.amazonaws.com/)'
  - Description: FlyBase-specific data for Drosophila melanogaster and related species, including gene annotations, GO annotations, expression data (bulk RNA-Seq, single-cell RNA-Seq), disease associations, phenotypes, interactions, orthologs, genome sequences (FASTA), and genome annotations (GFF3/GTF). Data organized by release (current/, FB2025_04/, etc.) with precomputed analysis files and complete Chado XML database dumps. Publicly accessible via HTTPS for direct download without AWS credentials.
    ARN: arn:aws:s3:::s3ftp.flybase.org
    Region: us-east-1
    Type: S3 Bucket
    Explore:
      - '[Browse via HTTPS](https://s3ftp.flybase.org/releases/current/)'
DataAtWork:
  Tutorials:
    - Title: Alliance of Genome Resources AWS Data Access Tutorials
      URL: https://github.com/alliance-genome/agr_open_data/blob/main/TUTORIAL.md
      AuthorName: Alliance of Genome Resources Consortium
      AuthorURL: https://www.alliancegenome.org
  Tools & Applications:
    - Title: Alliance of Genome Resources Portal
      URL: https://www.alliancegenome.org
      AuthorName: Alliance of Genome Resources Consortium
      AuthorURL: https://www.alliancegenome.org
    - Title: FlyBase - Drosophila Database
      URL: https://flybase.org
      AuthorName: FlyBase Consortium
      AuthorURL: https://flybase.org
    - Title: WormBase - C. elegans Database
      URL: https://www.wormbase.org
      AuthorName: WormBase Consortium
      AuthorURL: https://www.wormbase.org
    - Title: ZFIN - Zebrafish Database
      URL: https://zfin.org
      AuthorName: ZFIN
      AuthorURL: https://zfin.org
    - Title: MGI - Mouse Genome Database
      URL: http://www.informatics.jax.org
      AuthorName: MGI
      AuthorURL: http://www.informatics.jax.org
    - Title: RGD - Rat Genome Database
      URL: https://rgd.mcw.edu
      AuthorName: RGD
      AuthorURL: https://rgd.mcw.edu
    - Title: SGD - Saccharomyces Genome Database
      URL: https://www.yeastgenome.org
      AuthorName: SGD
      AuthorURL: https://www.yeastgenome.org
    - Title: Xenbase - Xenopus Database
      URL: http://www.xenbase.org
      AuthorName: Xenbase
      AuthorURL: http://www.xenbase.org
  Publications:
    - Title: Alliance of Genome Resources Portal - unified model organism research platform
      URL: https://doi.org/10.1093/nar/gkac1003
      AuthorName: Alliance of Genome Resources Consortium
ADXCategories:
  - Healthcare & Life Sciences Data