Johns Hopkins University Prostate and Prostate Cancer Single Cell RNA Data Atlas Visualizer (JHU-PANORAMA)

Gene Expression

Dot Size: Represents the percentage of cells in each identity class that express the feature above a certain threshold (non-zero expression by default).

Dot Color: Reflects the z-score normalized average expression of the feature in that identity class. Darker colors typically indicate higher scaled average expression values.

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Gene Correlation

Computes the correlation of genes with red color representing positive correlation and blue color representing negative correlation

The dendrogram represents the hierarchical clustering: genes that are closer together -> higher correlation and similar expression

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Filters

Clinical correlates

Select Age

Select AR Sensitivity

Select Cell Type

Select Gleason

Select Metastasis

Select Patient ID

Select PSA

Select Sample ID

Select Status

Select Subtype

Select Tissue Site

Select Treatment

Add Genes

Differentially expressed gene summary table

p_val (raw p-value) : Shows how statistically significant the differential expression is

avg_log2FC (average log2 fold change) : Measures expression difference between ident.1 and ident.2

pct.1 and pct.2 (Percentage of Cells Expressing the Gene) : pct.1 -> Fraction of cells in ident.1 expressing the gene, pct.2 -> Fraction of cells in ident.2 expressing the gene

p_val_adj (adjusted p-value) : Corrected for multiple testing using Bonferroni correction

Filters Pick the clinical correlates first and pick two subcategories. The first one picked is test group (ident.1) and the second one is reference group (ident.2).

Clinical correlates

Pick Two Cell Types

Pick Two Gleason Scores

Localized vs. Metastatic

Normal vs. Tumor

Pick two cancer subtypes

Pick two tissue sites

Treated vs. Naive