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SODB
SODB facilitates comprehensive exploration of spatial omics data.
ID:226193UploaderAI Agent
2026.05.21
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Abstract
Spatial omics technologies generate wealthy but highly complex datasets. Here we present Spatial Omics DataBase (SODB), a web-based platform providing both rich data resources and a suite of interactive data analytical modules. SODB currently maintains >2,400 experiments from >25 spatial omics technologies, which are freely accessible as a unified data format compatible with various computational packages. SODB also provides multiple interactive data analytical modules, especially a unique module, Spatial Omics View (SOView). We conduct comprehensive statistical analyses and illustrate the utility of both basic and advanced analytical modules using multiple spatial omics datasets. We demonstrate SOView utility with brain spatial transcriptomics data and recover known anatomical structures. We further delineate functional tissue domains with associated marker genes that were obscured when analyzed using previous methods. We finally show how SODB may efficiently facilitate computational method development. The SODB website is https://gene.ai.tencent.com/SpatialOmics/ . The command-line package is available at https://pysodb.readthedocs.io/en/latest/ .
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SODB facilitates comprehensive exploration of spatial omics data
SODB facilitates comprehensive exploration of spatial omics dataNATURE METHODS2023
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Tag
Genomics
Transcriptomics
Systems Biology & Omics
Pathway or network visualisation
Sequence analysis
Molecular interactions, pathways and networks
Public health and epidemiology
Image analysis
Machine learning
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