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:: Volume 5, Issue 2 (Int J Mol Cell Med 2016) ::
Int J Mol Cell Med 2016, 5(2): 65-79 Back to browse issues page
A Bioinformatics Approach to Prioritize Single Nucleotide Polymorphisms in TLRs Signaling Pathway Genes
Behnam Alipoor1, Hamid Ghaedi2, Mir Davood Omrani2, Milad Bastami2, Reza Meshkani1, Taghi Golmohammadi 3
1- Department of Biochemistry, Faculty of Medicine, Tehran University of Medical Sciences, Tehran, Iran.
2- Department of Medical Genetics, Faculty of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran.
3- Department of Biochemistry, Faculty of Medicine, Tehran University of Medical Sciences, Tehran, Iran. , taghigolmohammadi@yahoo.com
Abstract:   (6454 Views)

It has been suggested that single nucleotide polymorphisms (SNPs) in genes involved in Toll-like receptors (TLRs) pathway may exhibit broad effects on function of this network and might contribute to a range of human diseases. However, the extent to which these variations affect TLR signaling is not well understood. In this study, we adopted a bioinformatics approach to predict the consequences of SNPs in TLRs network. The consequences of non-synonymous coding SNPs (nsSNPs) were predicted by SIFT, PolyPhen, PANTHER, SNPs&GO, I-Mutant, ConSurf and NetSurf tools. Structural visualization of wild type and mutant protein was performed using the project HOPE and Swiss PDB viewer. The influence of 5′-UTR and 3′- UTR SNPs were analyzed by appropriate computational approaches. Nineteen nsSNPs in TLRs pathway genes were found to have deleterious consequences as predicted by the combination of different algorithms. Moreover, our results suggested that SNPs located at UTRs of TLRs pathway genes may potentially influence binding of transcription factors or microRNAs. By applying a pathway-based bioinformatics analysis of genetic variations, we provided a prioritized list of potentially deleterious variants. These findings may facilitate the selection of proper variants for future functional and/or association studies.

Keywords: Bioinformatics, in-silico analysis, single nucleotide polymorphisms, toll- like receptors
Full-Text [PDF 2358 kb]   (2633 Downloads)    
Type of Study: Original Article | Subject: Bioinformatic
Received: 2016/01/11 | Accepted: 2016/03/31 | Published: 2016/05/1
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Alipoor B, Ghaedi H, Omrani M D, Bastami M, Meshkani R, Golmohammadi T. A Bioinformatics Approach to Prioritize Single Nucleotide Polymorphisms in TLRs Signaling Pathway Genes. Int J Mol Cell Med. 2016; 5 (2) :65-79
URL: http://ijmcmed.org/article-1-451-en.html


Volume 5, Issue 2 (Int J Mol Cell Med 2016) Back to browse issues page
International Journal of Molecular and Cellular Medicine (IJMCM) International Journal of Molecular and Cellular Medicine (IJMCM)
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