Basic information

Phenotype

ESTIMATE: ESTIMATEScore

Description

Score that represents the total amount of immune and stroma infiltration (tumor impurity) in a tumor sample. Calculated as the sum of the ESTIMATE Immune and Stromal scores.

Source

https://www.nature.com/articles/ncomms3612

Method

The ESTIMATE scores reflecting the overall immune and stromal infiltration were calculated by the R package ESTIMATE (PMID: 24113773) using the normalized RNA expression data (RSEM). We removed genes with 0 expression in >=50% samples of a cohort.

Gene association

Number of significant genes with P-value ≤ 10^-6 for each cohorts are summarized in bar plots. The scatter plot highlights significant associations diven by protein rather than mRNA abundance.

Association of protein abundance of genes

Protein RNA SCNV

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			Signed p-values
Gene		Meta P	BRCA	CCRCC	COAD	GBM	HNSCC	LSCC	LUAD	OV	PDAC	UCEC
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* P-values for individual cohorts can be clicked to show the data plots. The rows in the table can be expanded to show results from other omics.

Gene set enrichment analysis

Submit genes and the common logarithm of the p-values of their association with ESTIMATE: ESTIMATEScore to WebGestalt.

Phosphosite association

Number of significant genes with P-value ≤ 10^-6 for each cohorts are summarized in the bar plot. The scatter plot highlights significant associations diven by phosphorylation rather than protein abundance.

* P-values for individual cohorts can be clicked to show the data plots.

Gene set enrichment analysis

Submit phosphorylation sites and the common logarithm of the p-values of their association with ESTIMATE: ESTIMATEScore to WebGestalt.