RESUMO
Aim: Aim of this study is screen of the large numbers of related genes of CD to find the key ones
Background: Celiac disease [CD] is known as a gluten sensitive and immune system dependent disease. There are several high throughput investigations about CD but it is necessary to clarify new molecular aspects mechanism of celiac
Methods: Whole-genome profile [RNA] of the human peripheral blood mononuclear cells [PBMCs] as Gene expression profile GSE113469 was retrieved Gene Expression Omnibus [GEO] database. The significant genes were selected and analyzed via proteinprotein interaction [PPI] network by Cytoscape software. The key genes were introduced and enriched via ClueGO to find the related biochemical pathways
Results: Among 250 significant genes 47 genes with expressed change above 2 fold change [FC] were interacted and the constructed network were analyzed. The network characterized by poor connections so it was promoted by addition 50 related nodes and 18 crucial nodes were introduced. Two clusters of biochemical pathways were identified and discussed
Conclusion: There is an obvious conflict between microarray finding and the well-known related genes of CD. This problem can be solve by more attention to the interpretation of PPI ntwork analysis results
RESUMO
Aim: In this study the significant differentially expressed genes [DEGs] related to gastric cancer [GC] and chronic gastritis were screened to introduce common and distinctive genes between the two diseases
Background: Diagnosis of gastric cancer as a mortal disease and chronic gastritis the stomach disorder which can be considered as risk factor of GCs required safe and effective molecular biomarkers
Methods: Microarray profiles were downloaded from Gene Expression Omnibus [GEO] and analyzed via GEO2R. The candidate DEGs plus relevant genes from STRING database were interacted by Cytoscape software version 3.6.0 the central nodes were determined and analyzed
Results: JUN, GAPDH, FOS, TP53, PRDM10, VEGFA, and CREB1 as central nodes and TFF1 and ERG1 as the top changed expressed genes were determined as critical nodes related to gastric cancer. GAPDH, PRDM10, TP53, JUN, AKT1, EGFR, MAPK1, EGF, DECR1, and MYC were identified as common remarkable genes between GC and chronic gastritis
Conclusion: Identification of distinctive and common genes between GC and chronic gastritis can be useful in the early stage detection of disease and reducing risk of GCs
RESUMO
Aim: Pathway analysis of gastric atrophy to find new molecular prospective of disease
Background: Gastric atrophy as a process which is accompanied with "loss of glans" in stomach can be considered as a risk factor of gastric cancer. Here, the correlated biochemical pathways to the disorder have been analyzed via protein-protein interaction [PPI] network analysis
Methods: The genes related to gastric atrophy were retrieved by STRING database and organized in a network by Cytoscape. Three significant clusters were determined by Cluster ONE plug-in of Cytoscape. The elements of cluster-2 which contained all central nodes of the network were enriched by ClueGO and the biochemical pathways discussed in details
Results: The number of seven central nodes [which are included in cluster-2]; INS, TP53, IL6, TNF, SRC, MYC, and IL8 were identified. The biochemical pathways related to the elements of cluster-2 were determined and clustered in nine groups. The pathways were discussed in details
Conclusion: Pathway analysis indicates that the introduced central genes of the network can be considered as biomarkers of gastric atrophy