ccle.yaml

Name: Cancer Cell Line Encyclopedia (CCLE)
Description: |
  The Cancer Cell Line Encyclopedia (CCLE) project is an effort to conduct a detailed genetic
  characterization of a large panel of human cancer cell lines. The CCLE provides public access to
  genomic data, visualization and analysis for over 1100 cancer cell lines. This dataset contains
  RNA-Seq Aligned Reads, WXS Aligned Reads, and WGS Aligned Reads data.
Documentation: https://portals.broadinstitute.org/ccle/about
Contact: dcf-support@datacommons.io
ManagedBy: "[Center for Translational Data Science at The University of Chicago](https://ctds.uchicago.edu/)"
UpdateFrequency: |
  Genomic Data Commons (GDC) is source of truth for this dataset; GDC offers monthly data releases,
  although this dataset may not be updated at every release.
Tags:
  - aws-pds
  - cancer
  - genetic
  - genomic
  - life sciences
  - transcriptomics
  - whole genome sequencing
  - Homo sapiens
  - STRIDES
License: "NIH Genomic Data Sharing Policy: https://gdc.cancer.gov/access-data/data-access-policies"
Resources:
  - Description: RNA-Seq Aligned Reads, WXS Aligned Reads, WGS Aligned Reads
    ARN: arn:aws:s3:::gdc-ccle-2-open
    Region: us-east-1
    Type: S3 Bucket
DataAtWork:
  Tools & Applications:
    - Title: Genomic Data Commons
      URL: https://portal.gdc.cancer.gov/legacy-archive/
      AuthorName: National Cancer Institute
      AuthorURL: https://gdc.cancer.gov/
    - Title: Broad Institute Cancer Cell Line Encyclopedia
      URL: https://portals.broadinstitute.org/ccle
      AuthorName: The Broad Institute of MIT & Harvard
      AuthorURL: https://www.broadinstitute.org/
    - Title: Cancer Genomics Cloud
      URL: https://cgc-accounts.sbgenomics.com/
      AuthorName: Seven Bridges
      AuthorURL: https://docs.sevenbridges.com/docs/ccle-data
    - Title: ISB CGC BigQuery tables
      URL: https://console.cloud.google.com/bigquery?p=isb-cgc&d=CCLE_bioclin_v0&page=dataset
      AuthorName: Institute for Systems Biology
      AuthorURL: |
        https://isb-cancer-genomics-cloud.readthedocs.io/en/latest/sections/data/CCLE_top.html
  Publications:
    - Title: Next-generation characterization of the Cancer Cell Line Encyclopedia
      URL: https://doi.org/10.1038/s41586-019-1186-3
      AuthorName: Ghandi, M., Huang F. et al.
    - Title: The landscape of cancer cell line metabolism
      URL: https://doi.org/10.1038/s41591-019-0404-8
      AuthorName: Li, H. et al.
    - Title: |
        The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug
        sensitivity
      URL: https://doi.org/10.1038/nature11003
      AuthorName: Barretina Caponigro Stransky et al.
    - Title: Pharmacogenomic agreement between two cancer cell line data sets
      URL: https://doi.org/10.1038/nature15736
      AuthorName: |
        The Cancer Cell Line Encyclopedia Consortium & The Genomics of Drug Sensitivity in Cancer
        Consortium