SSBD:repository

Introduction

Systems Science of Biological Dynamics repository (SSBD:repository) is an open data archive that stores and publishes bioimaging and biological quantitative datasets that are associated with published or to be published studies. It allow other researchers to access and download those datasets for referene or for further investigations.

Find the dataset from search box above, or see the dataset list in Resources.

See Citation Policies(PDF) for citation instructions.

SSBD:repository has started operation in 2016, under the life science database integration promotion project of the Japan Science and Technology (JST), National Bioscience Database Center (NBDC). Currently it is funded from RIKEN, JST and Grant-in-Aid for Scientific Research from the Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT).

For an overview of the SSBD:database/repository, please refer to the paper,
Tohsato, Y., Ho, K. H. L., Kyoda, K., and Onami S. (2016) "SSBD: a dataset of quantitative data of spatiotemporal dynamics of biological phenomena." Bioinformatics, 32(22): 3471-3479.
https://doi.org/10.1093/bioinformatics/btw417

Share your data in SSBD:repository

SSBD:repository covers a wide range of biological phenomena, from single molecules to cells / individuals. DOI (Digital Object Identifier) can be assigned to each dataset. Datasets in SSBD:repository are licensed under CC BY, CC BY-NC-SA, etc, upon request of the data contributors.

If you would like to share your image data or quantitative data of biological phenomena, or any other questions, please contact via e-mail (ssbd-repos@ml.riken.jp).

News

  • 2021-05-26,
    [Press Release] Launch of “NeuroGT Database”, a brain atlas of neurogenic tagging CreER mouse drivers
    Drs. Yukako Tohsato and Hiroya Itoga in our SSBD team, together with Prof. Tatsumi Hirata (NIG) and colleagues, developed the “NeuroGT database,” which contains whole-brain image data of tagged neurons based on time of neurogenesis. Through NeuroGT, researchers can find suitable neurogenic tagging driver lines for their research. https://so.riken.jp/2021/05/26/press-release-launch-of-neurogt-database-a-brain-atlas-of-neurogenic-tagging-creer-mouse-drivers/
  • 2021-05-24,
    REMBI: Recommended Metadata for Biological Images
    Our TL Dr Onami joined discussions on metadata standards in biological image data sharing with an international bioimaging community lead by EMBL-EBI. They propose global metadata guidelines, REMBI: Recommended Metadata for Biological Images. https://so.riken.jp/2021/05/24/rembi-recommended-metadata-for-biological-images/
  • 2021-05-11,
    [Press Release] Recommendations for global standards of open image data formats and repositories.
    TL Dr Shuichi Onami and Prof. Jason Swedlow (University of Dundee, UK) along with Global Bioimaging, an international consortium of the leading experts in bioimaging communities, released recommendations for bioimage data format standards and open access image data repositories. These recommendations contribute to accelerating the development of the bioimaging field through data sharing. https://so.riken.jp/2021/05/11/sharing-global-standards-of-open-image-date/
  • 2020-12-24,
    SSBD 2020 Update
    SSBD 2020 update, the metadata database fully renewed, and 77 image datasets (7GB) and 4 quantitative datasets are added. We are plaining next database update in a half year for COVID-19 situation.
  • 2020-08-12,
    A new paper on BD5 is published in PLOS ONE
    A new paper "BD5: an open HDF5-based data format to represent quantitative biological dynamics data" is now published in PLOS ONE. https://doi.org/10.1371/journal.pone.0237468
  • Older news...

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