prognosis of INCENP in LUAD (Supplementary Figure 2). It has been reported that ZDHHC5 depletion suppresses cell proliferation and colony formation of some NSCLC cell lines but not of human bronchial epithelial cell (HBEC3) (Tian et al., 2015). We analyzed the RNA-seq data of ZDHHC5 and INCENP in the LUAD cell line of A549 and HBEC3. As shown in Figure 3C, the mRNA levels of INCENP decreased in A549 compared with that in HBEC3, but ZDHHC5 did not. The scatter plots of the Pearson’s association analysis results revealed that the correlation between ZDHHC5 and INCENP in LUAD increased by clinical stages (Figure 3D). Next, we generated a set of INCENP correlated genes in LUAD, and used the Stouffer-based meta-analysis method to compare the associations results of ZDHHC5 and INCENP (Supplementary Table 1). Subsequently, we performed Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis using the results from the meta-analysis using gene set enrichment analysis (GSEA). To reduce redundancy, enriched gene sets were post-processed by the method of Weighted set cover (Vasaikar et al., 2018). Among the clustered results (Figure 3E), the cell cycle pathway (hsa04110) had the highest normalized enrichment score (NES) among the GSEA results (Figure 3F).
