Fig. 2: TRAF6 and HOIP-dependent gene expression in CD4 T cells.
From: LUBAC modulates CBM complex functions downstream of TRAF6 in T cells
a Gene set enrichment analysis (clusterProfiler/fgsea) after CD3/CD28 stimulation, using Hallmark and Gene Ontology Biological Process (GO:BP) gene sets; two-sided enrichment test, upregulated gene sets shown; permutation test p-values, Benjamini–Hochberg adjusted. b Gene set variation analysis (GSVA) scores of the Hallmark gene set “TNFA Signaling via NFKB” and GO:BP gene set “T cell Activation”. The interquartile range (IQR) around the median was represented, the bars were drawn to the medians, the whiskers extend to 1.5x IQR from the quartiles, and two-sided student’s t-test p-values are displayed for the GSVA scores. c TRAF6/HOIP dependency analysis (“Methods”) using DESeq2 interaction model, two-sided Wald test, Benjamini–Hochberg FDR–adjusted p-values. Higher values indicate weaker induction upon CD3/CD28 stimulation in sgTRAF6 or sgHOIP CD4+ T cells compared to control. All data of RNAseq experiments are from 4 biological replicates (donors).
