Fig. 3

The expression of genes involved in secretion and ECM regulation is altered in ccRCC. A GO analysis of 1497 genes commonly altered in Caki-1 and KIJ265T cells when compared with RPTEC. The genes are grouped by functional categories defined by high-level GO Cellular Component terms. The gene group categorization was analyzed using by ShinyGO 0.76 analysis (http://bioinformatics.sdstate.edu/go/) and the data was imported into GraphPad Prism to generate the plot. Complete data are shown in Additional file 1: Table S5. B The expression of genes regulating secretion and extracellular space. The plots show qPCR validation of microarray results in RNA isolated from 3 independent biological cell culture experiments. Statistical analysis: One-way ANOVA with Dunnett's Multiple Comparison Test. *p < 0.05, **p < 0.01, ***p < 0.001. C The expression of proteins regulating secretion and extracellular space in ccRCC tumors. The plots show results of UALCAN/CPTAC analysis. For SYTL3 only data for phosphopeptides were available (SYTL3 (1): NP_001229313.1:S185. SYTL3(2): NP_001229313.1:S203). N: normal kidney samples (n = 84), T: ccRCC tumors (n = 110). D The expression of SLC9A3R1 protein and its phosphorylated variants in ccRCC tumors. N: normal kidney samples (n = 84), T: ccRCC tumors (n = 110). The analysis was performed using UALCAN/CPTAC platform