ArticleBioinformatics (Oxford, England)2016
SSBD: a database of quantitative data of spatiotemporal dynamics of biological phenomena.
Article in Bioinformatics (Oxford, England), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- IDR searcher: a search engine solution for public image resources.Bioinformatics (Oxford, England) · 2026Article
- Enabling global image data sharing in the life sciences.Nature methods · 2025Review
- SSBD: an ecosystem for enhanced sharing and reuse of bioimaging data.Nucleic acids research · 2025Article
- Making the most of bioimaging data through interdisciplinary interactions.Journal of cell science · 2024Review
- Building a FAIR image data ecosystem for microscopy communities.Histochemistry and cell biology · 2023Review
- OME-Zarr: a cloud-optimized bioimaging file format with international community support.Histochemistry and cell biology · 2023Article
- OME-Zarr: a cloud-optimized bioimaging file format with international community support.bioRxiv : the preprint server for biology · 2023Article
- Robotic data acquisition with deep learning enables cell image-based prediction of transcriptomic phenotypes.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Systematic analysis of cell morphodynamics inFrontiers in bioinformatics · 2023Article
- Insulin signaling shapes fractal scaling of C. elegans behavior.Scientific reports · 2022Article
- Live cell microscopy: From image to insight.Biophysics reviews · 2022Review
- REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology.Nature methods · 2021Article
- Towards community-driven metadata standards for light microscopy: tiered specifications extending the OME model.Nature methods · 2021Article
- Micro-Meta App: an interactive tool for collecting microscopy metadata based on community specifications.Nature methods · 2021Article
- A global view of standards for open image data formats and repositories.Nature methods · 2021Article
- QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy.Journal of microscopy · 2021Article
- NeuroGT: A brain atlas of neurogenic tagging CreER drivers for birthdate-based classification and manipulation of mouse neurons.Cell reports methods · 2021Article
- Sharing biological data: why, when, and how.FEBS letters · 2021Article
- Statistical image processing quantifies the changes in cytoplasmic texture associated with aging in Caenorhabditis elegans oocytes.BMC bioinformatics · 2021Article
- Pancreatlas: Applying an Adaptable Framework to Map the Human Pancreas in Health and Disease.Patterns (New York, N.Y.) · 2020Article
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4 authors.
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Abstract
motivationRapid advances in live-cell imaging analysis and mathematical modeling have produced a large amount of quantitative data on spatiotemporal dynamics of biological objects ranging from molecules to organisms. There is now a crucial need to bring these large amounts of quantitative biological dynamics data together centrally in a coherent and systematic manner. This will facilitate the reuse of this data for further analysis.
resultsWe have developed the Systems Science of Biological Dynamics database (SSBD) to store and share quantitative biological dynamics data. SSBD currently provides 311 sets of quantitative data for single molecules, nuclei and whole organisms in a wide variety of model organisms from Escherichia coli to Mus musculus The data are provided in Biological Dynamics Markup Language format and also through a REST API. In addition, SSBD provides 188 sets of time-lapse microscopy images from which the quantitative data were obtained and software tools for data visualization and analysis. AVAILABILITY AND IMPLEMENTATION: SSBD is accessible at http://ssbd.qbic.riken.jp CONTACT: sonami@riken.jp.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.