Effects of high fat medium condition on cellular gene expression profile: a network analysis approach

Evaluation of high fat medium (HFM) effect on gene expression profile human Sk-hep1 cells and determination of critical differential proteins are the aim of this study.

There is correlation between high fat diet (HFD), obesity, and non-alcoholic fatty liver disease. Despite of wide range of investigations, molecular mechanism understanding of HFD of onset and progression of NAFLD implies more examination. In this study network analysis is applied to obtain a clear perspective about HFD effects and NAFLD. 

Gene expression profiles of human Sk-hep1 cells treated with HFM versus controls were extracted from GEO. Data was analyzed by GEO2R and the significant and characterized DEGs were included in the PPI network. Numbers of 10 top nodes of query DEGs based on four centrality parameters were selected to determine central nodes. The common hub nodes with at least other one central group were identified as central nodes. Action map was provided for the introduced central nodes.

Heterogeneous nuclear ribonucleoprotein family including A1, A2/B1, D, R, and D-like, and five proteins (PRPF40A, SRSF1, PCF11, LSM8, and HSP90AA1) were introduced as differentially proteins.

mRNA processing and several biological terms including hypoxia and oxidative stress, apoptosis, regulation of cell morphology and cytoskeletal organization, and differentiation of micro tubes were introduced as dysregulated terms under HFM condition.