Spatial-Temporal Analysis of Tumor Immune Microenvironment

The Tumor Immune Single Cell Hub (TISCH) was utilized to conduct single-cell analyses [18 (link)] to determine which BC cell types may express IMMT. Next, independent datasets from the scTIME Portal [19 (link)], consisting of BC patients’ cells, were analyzed on GSE75688 and visualized in UMAP. A heatmap was used to illustrate the signature expression of Mitophagy in GSE75688. The cellular communication among various T cell subsets was analyzed by the LR network of the scTIME Portal. SpatialDB was used to analyze the spatial transcriptomics [20 (link)], whereby the gene expression in tissue sections can be visualized and quantified. The IMMT expression in the immune cells of BC tissue was determined based on the GSE114724 dataset. TISIDB was used to conduct the Spearman correlation test for IMMT expression with immune infiltration levels [21 (link)]. GEPIA2 was used to determine the correlation of IMMT with the immune cell signature [22 (link)]. Estimation of Stromal and Immune cells in Malignant Tumor tissues using Expression data (ESTIMATE) was used to evaluate the matrix content, immune cell infiltration levels, comprehensive score, and tumor purity [23 (link)].