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SpatialDB: a database for spatially resolved transcriptomes.
Metadata
Journalnucleic acids research11.501Date
2020-01-08
Publication Type
Research Support, Non-U.S. Gov't
Journal Article
Volume
2020-01-08 / 48 : D233-D237
Author
Fan Z 1, Chen R 1, 2, Chen X 1
Affiliation
  • 2. University of Chinese Academy of Sciences, Beijing, 100049, China.
Doi
PMIDMESH
Animals
Databases, Genetic
Gene Expression Profiling
Humans
Mice
Transcriptome
Abstract
Spatially resolved transcriptomic techniques allow the characterization of spatial organization of cells in tissues, which revolutionize the studies of tissue function and disease pathology. New strategies for detecting spatial gene expression patterns are emerging, and spatially resolved transcriptomic data are accumulating rapidly. However, it is not convenient for biologists to exploit these data due to the diversity of strategies and complexity in data analysis. Here, we present SpatialDB, the first manually curated database for spatially resolved transcriptomic techniques and datasets. The current version of SpatialDB contains 24 datasets (305 sub-datasets) from 5 species generated by 8 spatially resolved transcriptomic techniques. SpatialDB provides a user-friendly web interface for visualization and comparison of spatially resolved transcriptomic data. To further explore these data, SpatialDB also provides spatially variable genes and their functional enrichment annotation. SpatialDB offers a repository for research community to investigate the spatial cellular structure of tissues, and may bring new insights into understanding the cellular microenvironment in disease. SpatialDB is freely available at https://www.spatialomics.org/SpatialDB.
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Nucleic Acids Resnucleic acids research
Metadata
LocationEngland
FromOXFORD UNIV PRESS

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