About Immnue Cluster

Immune cluster data can be used to check the relationship between genes and patient information.

The Immune cluster page displays quantitative values for tumor patients.

Basic functions

1. Click the [Apply] button

To utilize specific genes, in the 'Genes of interest' bar find and select up to 10 genes (1).

After filling the box with your desired inquiries, please push the 'Apply' button (2).

apply_gene_immune

As shown below, the heatmap produced from your search can then be used to determine the relationship between patients and genes of your choice.

after_apply_immune

2. Click the [Legend] button

The legend is initially expanded when the screen opens. You can hide it by clicking the 'X' button, or expand it again by clicking the 'Legend' button, depending on your preference.

legend_button

If you click the 'X' button, you can get hide the legend.

legend_popup

3. Click the [Link] column

You can see the Link column on the right side.

link

It means the Uniprot ID which have relationship with gene.

click_the_link

It has a hyperlink to connect Uniprot site.

Therefore, if you click that ID, not starred 'X', you can move to Uniprot site.

link_to_uniprot

4. Meta data sorting

If you want to sort by the value of meta information, click the meta column name.

link

The first click on the same column name will sort in ascending order, the second click will sort in descending order, and the third click will disable the sorting function.

click_the_link

5. Legend information

Pathway Based IC HTE or CTE status from clustering analysis based on pathway enrichment scores for Immunogram.
TIL Pattern The pattern of tumor infiltrating lymphocytes (TIL).
Histology Name of pathological diagnosis classification for using this study.

(AD :Adenocarcinoma , SC : Squamous cell carcinoma, MA : Mucinous adenocarcinoma, NC : Large cell neuroendocrine carcinoma and others)
Multi Omics Subtype NMF subtypes of patients with NSCLC in this study.
Stage Tumor stage
Cell Type Based IC HTE or CTE status from clustering analysis based on cell type enrichment scores using xCell.
CD8 T Cells Enrichment score of CD8+ T cells.
CD4 T Cells Enrichment score of CD4+ T cells.
Tregs Enrichment score of regulatory T cells.
B Cells Enrichment score of B cells.
NK Cells Enrichment score of natural killer cells.
Neutrophils Enrichment score of neutrophils.
DC Enrichment score of dendritic cells.
Monocytes Enrichment score of monocytes.
Macrophages Enrichment score of macrophages.
Epithelial Cells Enrichment score of epithelial cells.
Recognition of Tumor Cells Enrichment score of recognition of tumor cells pathway.
Trafficking and Infiltration Enrichment score of trafficking and infiltration pathway.
Checkpoint Expression Enrichment score of checkpoint expression pathway.
Inhibitor Cells Enrichment score of inhibitor cells pathway.
Priming and Activation Enrichment score of priming and activation pathway.
Tcell Immunity Enrichment score of T cell immunity pathway.
Inhibitory Molecules Enrichment score of inhibitory molecules pathway.

Tab funtions

It consists of Morpheus functions.

Therefore, if you want to check how to use tab function, please follow the Morpheus tutorial.