Title: High-definition spatial transcriptomics for in situ tissue profiling
Authors: Sanja Vickovic, Gkcen Eraslan, Fredrik Salmn, Johanna Klughammer, Linnea Stenbeck, Denis Schapiro, Tarmo ij, Richard Bonneau, Ludvig Bergenstrhle, Jos Fernandz Navarro, Joshua Gould, Gabriel K Griffin, ke Borg, Mostafa Ronaghi, Jonas Frisn, Joakim Lundeberg, Aviv Regev, Patrik L Sthl$
Date published: 10/16/19
Date added: 5/1/22
Journal: Nature Methods
DOI: 10.1038/s41592-019-0548-y
Protocol: HDST
Data source: GSE130682
Species: mouse, human
Number of samples: 3
Region: Main olfactory bulb
Figure: High-definition spatial transcriptomics for in situ tissue profiling.
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ssREAD sample ID: ST00401
Sample raw name: CN24_E1
Total spots in the plot: 582
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Gene expression
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| Gene name | Log fold-change | target_domain | Adjusted p-value | in_group_fraction | out_group_fraction | in_out_group_ratio | in_group_mean_exp | out_group_mean_exp |
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Note: The MAST package were used to calculate DEGs on normalized gene expression data (parameter: log2FC > 0.25, adj.p-value < 0.05).
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| Gene name | Log fold-change | Pct.1 | Pct.2 | Adjusted p-value |
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