Abstract
The priming stage is the first step of liver regeneration (LR). This stage is characterized by the transition from G0 to cell cycle for 4 hours in rat. In this study, individual gene level and gene set level (GSEA) was performed to identify the candidate genes and significantly changed biological processes at 2 h after partial hepatectomy (PH). The leading edge analysis is performed to identify the key genes and iRegulon was employed for transcription factor (TF) analysis. A total of 53 differentially expressed genes were identified using RMA package based on R language at 2 h after PH, including the transcription factor, enzyme and cytokine. As the most important genes in our analysis, Socs3 was selected with a special analysis so as to find the pathways correlate to the expression of it. The changed significantly pathways in LR involved response to stress, ATP metabolism, and regulation of cell cycle mainly. Several transcription factors were identified including Stat5a, Cnot3 and zfp384. Taken together, at the early priming stage of LR in rat, the liver is experiencing some changes including response to stress, activated ATP metabolism and inhibition of cell cycle. Our analysis provided a detailed and comprehensive map for further research of the early priming stage of LR in rat.
Highlights
Liver plays roles in the metabolism of carbohydrates, lipid, proteins and biochemical defense against toxic chemicals
A total of 52 differentially expressed genes (DEGs) (Differentially expressed genes) were identified at 2 h after partial hepatectomy (PH) compared with the normal group, including 33 up-regulated genes and 19 down-regulated genes and the heat-map of DEGs is shown in Figure 1A and 1B. (Table 1)
The results showed that response to extracellular stimulus, biotic stimulus, cytokine, chemical stimulus, oxidative stress, ionizing radiation and stress, ATP metabolic process and organ growth is globally stronger at 2 h after PH
Summary
Liver plays roles in the metabolism of carbohydrates, lipid, proteins and biochemical defense against toxic chemicals. It is assured that each signal plays its meaningful role in different aspects in LR. Understanding this mechanism of the initiation of LR is very important. The priming stage is species-dependent [4] In this phase, the early period of 0-4 h after PHx, some events occurs preparing for the progression [4]. In order to explore the changes and interaction mechanism of biological process , key genes and transcription factors (TFs) at the early priming stage in rat, especially at 2 h after PH, we done the gene set enrichment analysis mainly to find the intrinsic events which is important in experimental conditions but in clinical settings
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