Fig. 4

Integrated analyses of proteomics and transcriptomics. a Clustering analysis of the overlapped genes. DAVID analysis was used to analyze the 28 overlapped genes. Four enriched clusters are shown. Green: corresponding gene-term association positively reported; Black: corresponding gene-term association that was not yet reported. b GO analysis of the overlapping differently expressed proteins. Enriched Gene Ontology shows an overview of the gene ontology analysis with up to 10 significantly enriched terms in the BP, CC, and MF categories. The cut-off of P-value is set to 0.05. Terms of the same category are ordered by P-values. The left terms are more significant than the right terms. Information about the percentage and number of involved genes/proteins in a term is shown on the y-axis. c The KEGG Pathway analysis of the overlapping differentially expressed proteins. The overlapping differentially expressed proteins were analyzed using the KEGG Pathway. The top 10 enriched processes are shown here. P value =0.01 and P value =0.05 as two selected cutoffs are highlighted on the chart, as an indicator to show how significant the results are based on genome background enrichment. d The interaction analysis of proteins involved in oxidative stress, including GSTP1, CAT, PRDX1, NXN, and BLVRB, which is a key biological process during liver fibrosis. Further assessment of the five proteins was performed using STRING, and no more than five interactors were added