xcell: T cell CD4+ naive

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Phenotype
xcell: T cell CD4+ naive
Description
Enrichment score inferring the proportion of naïve CD4+ T cells in the tumor derived from RNA data using the xCell tool.
Source
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-017-1349-1
Method
The R package immunedeconv (V2.0.4) (PMID: 31510660) was used to perform immune cell deconvolution using RNA expression data (TPM).
Genes
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

Signed p-values
Gene Meta P BRCA CCRCC COAD GBM HNSCC LSCC LUAD OV PDAC UCEC

* 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 xcell: T cell CD4+ naive 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.

Signed p-values
Gene Protein Site Meta P BRCA CCRCC COAD GBM HNSCC LSCC LUAD OV PDAC UCEC

* 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 xcell: T cell CD4+ naive to WebGestalt.