Fig 1.
(A) Volcano plots of DEGs in GEO. (B)Volcano plots of DEGs in TCGA. (C) The Venn diagram showed 3820 overlapping DEGs.
Fig 2.
GO annotation analyses of DEGs.
(A) The bar plot of GO annotation analyses of top 8 enriched pathways in BP, CC and MF. (B) The bubble plot of GO annotation analyses of top 8 enriched pathways in BP, CC and MF. (C) The network of interaction between top 50 enriched pathways.
Fig 3.
KEGG pathway enrichment analyses of DEGs.
(A) The bar plot of top 30 enriched KEGG pathways. (B) The bubble plot of top 30 enriched KEGG pathways. (C) The circle plot and the table of description for the top 10 enriched KEGG pathways.
Fig 4.
Construction and verification of prognostic model.
(A) Coefficient profile of LASSO. (B) The selection of tuning parameter (lambda) based on the minimum criteria for overall survival and by 10-fold cross-validation. (C) The forest plot for summarizing the prognostic model, showing the coefficients, hazard ration (including the range) and the p value of every ten selected genes. (D) The Kaplan-Meier survival curve of patients in high-risk and low-risk groups. (E) The ROC curves of the model estimating 1-, 3-, 5- and 8-year overall survival.
Fig 5.
(A-J) The Kaplan-Meier survival curve of different genes in high-expression and low-expression groups.
Fig 6.
Establishment and verification of diagnostic model.
(A) The forest of summarizing the diagnostic model. (B) The ROC curve of this diagnostic model. (C) The nomogram for the clinical utility of this model. (D) The calibration curves for the nomogram. (E) The ROC curve of this diagnostic model in TCGA data. (F) The calibration curves for the nomogram in TCGA data.
Fig 7.
Validation of the level of key genes.
(A) mRNA expressions of the 10 signature genes detected by RT-qPCR (n = 6). (B) Protein expressions of the 10 signature genes detected by Western Blot (n = 3). (C) SNAPC2 mRNA expression in transfected HepG2 cells detected by RT-qPCR (n = 6). (D) SNAPC2 protein expression in transfected HepG2 cells detected by Western Blot (n = 3). * P < 0.05, ** P < 0.01, *** P < 0.001.
Fig 8.
SNAPC2 affected the proliferation, migration and apoptosis of liver cancer cells.
(A) The result of CCK-8 assays (n = 3). (B) The result of colony-forming assay (n = 3). (C) The result of cell scratch test (n = 3). (D) The result of transwell migration assay (n = 4). (E) The result of flow cytometry after transfected cells being double stained. * P < 0.05, ** P < 0.01, *** P < 0.001.
Fig 9.
Exploring the mechanism of SNAPC2 in liver cancer.
(A) GSEA enrichment analysis of single gene SNAPC2 in GEO data. (B) GSEA enrichment analysis of single gene SNAPC2 in TCGA data. (C) GSEA curves in GEO data. (D) GSEA curves in TCGA data. (E-F) Correlation analysis heatmap. (G) Boxplot display of Friend analysis results.