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Updated: Aug 9, 2025

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SODB facilitates comprehensive exploration of spatial omics data.

Zhiyuan Yuan1,2, Wentao Pan3,4, Xuan Zhao3

  • 1Institute of Science and Technology for Brain-Inspired Intelligence; MOE Key Laboratory of Computational Neuroscience and Brain-Inspired Intelligence; MOE Frontiers Center for Brain Science, Fudan University, Shanghai, China. zhiyuan@fudan.edu.cn.

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|February 16, 2023
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Summary

Spatial Omics DataBase (SODB) offers a unified platform for over 2,400 spatial omics experiments. This resource aids in analyzing complex spatial omics data, revealing biological insights and facilitating computational method development.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Spatial omics technologies generate large, complex datasets.
  • Existing platforms may lack comprehensive data integration and analysis tools.

Purpose of the Study:

  • To introduce Spatial Omics DataBase (SODB), a web-based platform for spatial omics data.
  • To provide a unified data resource and interactive analytical modules for spatial omics research.

Main Methods:

  • Developed a web-based platform (SODB) integrating >2,400 spatial omics experiments.
  • Implemented a unified data format compatible with computational packages.
  • Created interactive analytical modules, including Spatial Omics View (SOView).

Main Results:

  • SODB provides free access to a diverse range of spatial omics data.
  • SOView successfully identified anatomical structures in brain spatial transcriptomics data.
  • Advanced analysis delineated functional tissue domains and marker genes missed by previous methods.

Conclusions:

  • SODB serves as a valuable resource for spatial omics data exploration and analysis.
  • The platform facilitates the discovery of novel biological insights and aids computational method development.
  • SODB enhances the utility of spatial omics technologies for biological research.