UALCAN3 is a web resource providing open access to TCGA and CPTAC data. We performed mRNA and protein gene expression analysis in UALCAN. RNA-seq results of mRNA expression was normalized as Transcript per million (TPM), and the expression data is log2 (TPM + 1) transformed. As there was an observed high variability in within-profile expression median or standard deviation across samples, the log2 spectral count ratio values from CPTAC were first normalized to standard deviations from the median value within each sample profile, and then normalized across the sample. Z-values represent standard deviations from the median across samples for LUAD. We used the median to calculate the deviation between LUAD and the normal cases. Significant differences were estimated by Student’s t-test, and a P-value < 0.05 was considered to define differentially expressed genes (DEGs).
