Sample Data


Download the GDPx1 Sample Dataset

This dataset provides an example of the data we can generate from our functional genomics screens. See here for more details about how this data was generated and terms of use.

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GDPx2

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RELEASE DATE
  • December 2024

DATA PACKAGE
  • Metadata for a subset of 10 compounds and all controls

  • PDF outlining the experimental set up

CELL TYPES
  • Human melanocytes cells, aortic smooth muscle cells, dermal fibroblast, and skeletal muscle myoblasts

PERTURBATIONS
  • 85 compounds, 6 concentrations, 4 replicates

SEQUENCING DEPTH
  • 2M reads

READOUT
  • Transcriptomic (Drug-seq)

PLATE DENSITY
  • 384-well plate

AVAILABLE DATASET SIZE (FASTQ)
  • ~200 GB / cell type

GDPx1

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RELEASE DATE
  • September 2024

DATA PACKAGE
  • Metadata for the 1264 compounds screen

  • Raw UMI counts for the subset of 20 compounds

  • PDF outlining the experimental set up

CELL TYPES
  • A459 cells (a human non-small cell carcinoma epithelial cell line)

PERTURBATIONS
  • 1,264 compounds, 2 concentrations, 4 replicates

SEQUENCING DEPTH
  • 2M reads

READOUT
  • Transcriptomic (Drug-seq)

PLATE DENSITY
  • 384-well plate

AVAILABLE DATASET SIZE (FASTQ)
  • 60 GB

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How was the data generated?

The Library of Pharmacologically Active Compounds (LOPAC 1280), containing 1,264 compounds, was tested at two concentrations (100 nM and 1000 nM) using four technical replicates in A549 cells (a human lung carcinoma epithelial cell line). We used plates in a 384 well format, which were sequenced using Ginkgo’s custom DRUG-seq pipeline. The downloadable dataset includes a subset of 20 compounds from the larger screen.

Terms of use

By clicking ‘Download’ and accessing the dataset included therein (the “data”) you acknowledge and agree that: (1) the data is solely owned by Ginkgo Bioworks, Inc. and/or its affiliates and/or representatives (collectively, “Ginkgo”) and you are not granted any license thereto except solely as necessary for the limited purpose of determining whether to pursue a data generation agreement with Ginkgo (“the Purpose”) and for no other purpose; (2) you may not copy, modify, sell, lease, or distribute the data (except as necessary for the Purpose); (3) in no event will Ginkgo be liable to you or any third party for any consequential, special, indirect, incidental, punitive or exemplary damages, costs, expenses or losses (including lost profits) (collectively, “damages”), regardless of the form of action or the basis for such claim or liability arising in any way from your access to or use of the data; and (4) Ginkgo does not make any representations, warranties or guarantees of any kind with respect to the data, either express or implied, including any warranty of quality, merchantability, or fitness for a particular use or purpose or any warranty as to non-infringement of any intellectual property rights of third parties.