In this panel, you can compare gene expression level between patients with and without key hotspot mutations.

GEPIA performs ANOVA or Wilcoxon rank-sum test for differential expression analysis with hotspot mutation. Only significant results will be provided (p < 0.1). Meanwhile, you can compare expression correlation between your query gene and hotspot gene in mutant or non-mutant cases by click 'plot' button. Spearman's r was used in Correlation analysis. Only primary tumor expression level was included in this function. The criteria for hotspot mutations are mutation frequency > 0.05 and occurrence in at least 10 samples.

Parameters:

• Gene: Input a gene/isoform or geneset of interest.
• Methods: Select ANOVA or Wilcoxon for differential analysis.
• log2 transformed: Select whether use log2(TPM+1) as expression abundance.
• Hotspot Mutation Type: Select the type of mutation. Gene level means any nonsilent mutation in the gene. Amino acid level means changes at specific amino acid site (HGSV protein-level).
• Datasets Selection: Select one or multiple cancer types of interest in the "Dataset Selection" field and click "add" to build dataset list in the "Datasets" field.
• Plot Color: Choose group color to plot differential expression boxplot and correlation scatter plot.

Results:

• The table shows the significant results of differential expression between hotspot mutant and wildtype cases. Click the button beside mutation to plot gene expression distribution of mutant and wildtype groups, as well as the expression correlation with the hotspot gene.