czb-opencell.yaml

Name: OpenCell on AWS
Description: |
  The OpenCell project is a proteome-scale effort to measure the localization and interactions of human proteins
  using high-throughput genome engineering to endogenously tag thousands of proteins in the human proteome.
  This dataset consists of the raw confocal fluorescence microscopy images for all tagged cell lines in the OpenCell library. 
  These images can be interpreted both individually, to determine the localization of particular proteins of interest,
  and in aggregate, by training machine learning models to classify or quantify subcellular localization patterns. 
Documentation: https://opencell.czbiohub.org/download
Contact: opencell@czbiohub.org
ManagedBy: "[Chan Zuckerberg Biohub](https://www.czbiohub.org/)"
UpdateFrequency: This is the final version of the dataset.
Tags:
  - aws-pds
  - biology
  - cell biology
  - life sciences
  - imaging
  - cell imaging
  - fluorescence imaging
  - microscopy
  - computer vision
  - machine learning
License: https://github.com/czbiohub/opencell/blob/master/LICENSE
Resources:
  - Description: Live-cell confocal fluorescence microscopy images of the OpenCell library of fluorescently tagged cell lines
    ARN: arn:aws:s3:::czb-opencell
    Region: us-west-2
    Type: S3 Bucket
DataAtWork:
  Tutorials:
  Tools & Applications:
    - Title: OpenCell web portal
      URL: https://opencell.czbiohub.org
      AuthorName: OpenCell team
      AuthorURL: https://www.czbiohub.org/manuel-leonetti-intracellular-architecture
    - Title: cytoself (an unsupervised ML model to quantify localization patterns)
      URL: https://github.com/royerlab/cytoself
      AuthorName: Hirofumi Kobayashi, Keith C. Cheveralls, Manuel D. Leonetti, Loic A. Royer
      AuthorURL: https://www.royerlab.org
  Publications:
    - Title: "OpenCell: proteome-scale endogenous tagging enables the cartography of human cellular organization"
      URL: https://www.biorxiv.org/content/10.1101/2021.03.29.437450v1
      AuthorName: Nathan H. Cho, Keith C. Cheveralls, Andreas-David Brunner, Kibeom Kim, André C. Michaelis, Preethi Raghavan, et al.
      AuthorURL: https://www.czbiohub.org/manuel-leonetti-intracellular-architecture
    - Title: "Self-Supervised Deep-Learning Encodes High-Resolution Features of Protein Subcellular Localization"
      URL: https://www.biorxiv.org/content/10.1101/2021.03.29.437595v1
      AuthorName: Hirofumi Kobayashi, Keith C. Cheveralls, Manuel D. Leonetti, Loic A. Royer
      AuthorURL: https://www.royerlab.org