Celiac disease microarray analysis based on system biology approach

Mostafa Rezaei –Tavirani, Davood Bashash, Fatemeh Tajik Rostami, Sina Rezaei Tavirani, Abdolrahim Nikzamir, Majid Rezaei Tavirani, Mohammad Hossain Haidari

Abstract


129

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 protein-protein 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.

Keywords: Celiac disease, System biology, Crucial genes, Cytoscape, ClueGO.

(Please cite as: Rezaei Tavirani M, Bashash D, Tajik Rostami F, Rezaei Tavirani S, Nikzamir A, Rezaei Tavirani M, et al. Celiac Disease Microarray Analysis based on System Biology Approach. Gastroenterol Hepatol Bed Bench 2018;11(3):216-224).


Keywords


Celiac disease, System biology, Crucial genes, Cytoscape, ClueGO

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DOI: http://dx.doi.org/10.22037/ghfbb.v0i0.1405

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