SPathDB: A Database for Spatial Pathway Activity Atlas
Author Information
Author(s): Li Feng, Song Xinyu, Fan Wenli, Pei Liying, Liu Jiaqi, Zhao Rui, Zhang Yifang, Li Mengyue, Song Kaiyue, Sun Yu, Zhang Chunlong, Zhang Yunpeng, Xu Yanjun
Primary Institution: College of Bioinformatics Science and Technology, Harbin Medical University
Hypothesis
Characterizing functional activity within tissue space can reveal features driving spatial heterogeneity.
Conclusion
SPathDB serves as a foundational resource for identifying functional features and elucidating mechanisms of spatial heterogeneity.
Supporting Evidence
- SPathDB contains 1689,868 spatial spots from 84 spatial transcriptome datasets.
- The database includes 114,998 biological pathways.
- SPathDB provides tools for exploring pathway activity across spatial spots.
- The database aids in understanding the mechanisms of tissue and organ development.
Takeaway
SPathDB is like a big library that helps scientists understand how different parts of tissues work together by looking at their activity.
Methodology
The database was created by manually curating spatial transcriptomics datasets and biological pathways, providing tools for analysis and visualization.
Limitations
The correlation analysis does not accurately reveal cell type-specific pathway activity.
Digital Object Identifier (DOI)
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