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International Journal of Computational Bioinformatics and In Silico Modeling
2014: Volume-3 Issue-6
ISSN: 2320-0634

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ABSTRACT   REFERENCES  
International Journal of Computational Bioinformatics and In Silico Modeling 3(6) 2014: 562-577

Computational analysis of deleterious nsSNPs within HLA-DRB1 and HLA-DQB1 genes responsible for Allograft rejection



Mohamed M. Hassan1,3*, Amar.A.Dowd3, Abubaker H. Mohamed1, Shimaa M.O.S. Mahalah4, Hazem H.Kaheel6, Sofia B. Mohamed5 and Mohamed A. Hassan1,2,3,6

1 Department of Bioinformatics, Africa city of technology, Sudan
2 Division of Molecular Genetics, Institute of Human Genetics, University of Tübingen, Germany
3 University of Medical Science and Technology, Sudan
4 Faculty of Medicine, University of Khartoum, Sudan
5 Tropical Medicine Research Institute, Sudan
6 HNO –Universities Klink-Tubingen, Germany

* Corresponding Author

ABSTRACT

HLA genes play important roles in the immune system and have multiple alleles that show extensive variation across human populations. Single-nucleotide polymorphisms (SNPs) play a major role in the understanding of the genetic basis of many complex human diseases. Also, the genetics of human phenotype variation could be understood by knowing the functions of these SNPs. It is still a major challenge to identify the functional SNPs in a disease-related gene. In this work, we explore whether SNPs mutations in HLA complex genes affect Allograft rejection -renal transplantation rejection-, the genetic variation that can alter the function and structure of HLA-DRB1 and HLA-DQB1 genes had been analyzed using computational methods. HLA-DRB1 gene contained a total of 4078 SNPs, of which 367 were nonsynonymous SNPs, likewise HLA-DQB1 gene contain total of 5459 SNPs of which 107 were nsSNPs. It was found through HLA-DRB1 that, 24 nsSNPs were predicted to be damaging by both SIFT and PolyPhen servers, comparing with the only one nsSNP (rs41558214) predicted by SIFT program through HLA-DQB1 gene. This study proposes that the main target mutation for the kidney transplantation rejection could be caused by SNPs located in coding- nonsynonymous regions of HLA-DRB1 gene. HLA typing using SNPs analysis is a suitable, accurate and an easy way to cover all types of HLA genes and could provide beneficial outcomes.

 


Copyright © 2014 | AIZEON publishers | All rights reserved

 

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Citation: Mohamed M. Hassan et al. (2014). Computational analysis of deleterious nsSNPs within HLA-DRB1 and HLA-DQB1 genes responsible for Allograft rejection. Int J Comput Bioinfo In Silico Model 3(6): 562-577

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