Pathway analyses using the tool PROGENy34,35 identified fibro-inflammatory pathways TGFβ, NFκB, TNFα, and hypoxia and pathways associated with liver damage-repair, regeneration and malignant transformation such as EGFR, MAPK, P53, PI3K, and WNT to be significantly upregulated in cirrhosis patients compared to controls (Fig. 6c, Supplementary Table 3). The gene discussed is TNF; the disease is Cirrhosis.