Example 10: Analysis of human breast cancer Xenium data, revealing microenvironment heterogeneity across tumor subtypes

• Run INSPIRE on the human breast cancer Xenium sections
  • Import packages
  • Data preprocessing
  • Load preprocessed data
  • Run INSPIRE model
  • Access cell representations, proportions of spatial factors in cells, and gene loading matrix
  • Save results
• Spatial region identification in the human breast cancer data analysis
  • Load results
  • Spatial region identification
• Analysis of spatial factors corresponding to myoepithelial subpopulations
  • Load results
  • Visualization of gene signatures
  • Gene expression pattern among myoepithelial factor-related cells
  • Correlation analysis of spatial factors and their associated gene expression profiles
  • Construction of the spatial map for myoepithelial factor-related cells
  • Spatial colocalization analysis between myoepithelial factor-related cells and distinct tumor subtypes
• Analysis of spatial factors corresponding to endothelial subpopulations
  • Load results
  • Visualization of gene signatures
  • Gene expression pattern among endothelial factor-related cells
  • Correlation analysis of spatial factors and their associated gene expression profiles
  • Construction of the spatial map for endothelial factor-related cells
  • Spatial colocalization analysis between endothelial factor-related cells and distinct tumor subtypes