Fig. 1: RNA-seq and histone mark ChIP-seq of AH and normal livers show significant differences.
From: Super enhancer regulation of cytokine-induced chemokine production in alcoholic hepatitis
a Schematic of RNA-seq and ChIP-seq analyses pipeline. b Heatmap of differentially expressed genes from the integrated analysis of RNA-seq and ChIP-seq (gold: upregulated genes; green: downregulated genes). c IPA of upregulated genes from the integrated analysis. Top ten affected canonical pathways are listed along with their respective inverse log of p values. Right-tailed Fisher’s Exact Test was used for the calculation of p values. d Differentially expressed genes from the granulocytes/agranulocytes adhesion and diapedesis pathways are listed. Four CXCL chemokines 1, 5, 6, and 8 are located at the same locus and are colored light gray. e Upstream regulator analysis from IPA. Top ten activated upstream regulators are listed along with their respective normalized z-scores. f GSEA of TNFα and NF-κB pathway target genes. AH enriched genes are plotted to the left and control enriched genes are plotted to the right. Normalized enrichment score (NES) and false discovery rate (FDR) are listed for the analyses.
