Data Statistics and tSNE/UMAP Visualization

  • Overview of the dataset
  • tSNE/UMAP - unsupervised clustering
  • The dataset included a total of 757 cells, the parameters adopted were as follows: resolution=1, PCs=1:20, MT<10%.

Tumor Microenvironment

  • Cell components
  • Subtype Cell Count Percentage
    Monocytes 26 3.430%
    Macrophages 288 38.040%
    Dendritic cells 24 3.170%
    Malignant cells 217 28.670%
    Unassigned 2 0.260%
    Astrocytes 25 3.300%
    Oligodendrocytes 175 23.120%
  • Differential expression analysis
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    Gene Symbol
    Avg_logFC
    Pct.1
    Pct.2
    p-value
    adj_pvalue
    GJB62.300.9200.0048.272e-1362.992e-131
    PPP1R1B1.780.9600.0088.264e-1292.989e-124
    ETNPPL3.101.0000.0118.542e-1283.090e-123
    SLC39A121.270.8400.0043.916e-1221.416e-117
    LINC004990.790.8000.0051.139e-1104.119e-106
    NTSR21.490.7600.0046.077e-1092.198e-104
    CPNE62.210.8400.0082.564e-1089.273e-104
    WIF12.330.7200.0071.241e-934.490e-89
    HHATL2.010.8400.0164.202e-891.520e-84
    GRM31.800.8400.0168.788e-893.178e-84
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  • GO and KEGG enrichments

Functional Genes' Expression

  • Receptor and ligand genes
  • Receptor genes and their paired ligand genes were collected from CelltalkDB, SingleCellSingalR, Cellinker, Cell-Cell Interaction Database and Armingol E, et al., 2021. The following figures only demonstrated the expression of receptor genes and ligand genes supported by three or more databases or other sources, and the corresponding relationship between ligands and receptors were shown in the following table.

  • Oncogenes and suppressor genes
  • Oncogenes and tumor suppressor genes (TSGs) were collected from Cancer Gene Census (CGC), OncoKB, Network of Cancer Genes (NCG), TSGene, IntOGene and Volkan Okur and Wendy K. Chung, 2017. The following figures only displayed the expression of oncogenes and TSGs supported by three or more databases or other sources.