title: Combined sequence and sequence-structure-based methods for analyzing RAAS gene SNPs: a computational approach.
abstract: The renin-angiotensin-aldosterone system (RAAS) plays a key role in the regulation of blood pressure (BP). Mutations on the genes that encode components of the RAAS have played a significant role in genetic susceptibility to hypertension and have been intensively scrutinized. The identification of such probably causal mutations not only provides insight into the RAAS but may also serve as antihypertensive therapeutic targets and diagnostic markers. The methods for analyzing the SNPs from the huge dataset of SNPs, containing both functional and neutral SNPs is challenging by the experimental approach on every SNPs to determine their biological significance. To explore the functional significance of genetic mutation (SNPs), we adopted combined sequence and sequence-structure-based SNP analysis algorithm. Out of 3864 SNPs reported in dbSNP, we found 108 missense SNPs in the coding region and remaining in the non-coding region. In this study, we are reporting only those SNPs in coding region to be deleterious when three or more tools are predicted to be deleterious and which have high RMSD from the native structure. Based on these analyses, we have identified two SNPs of REN gene, eight SNPs of AGT gene, three SNPs of ACE gene, two SNPs of AT1R gene, three SNPs of CYP11B2 gene and three SNPs of CMA1 gene in the coding region were found to be deleterious. Further this type of study will be helpful in reducing the cost and time for identification of potential SNP and also helpful in selecting potential SNP for experimental study out of SNP pool.
authors.affiliation: Department of Bioinformatics, Alagappa University , Karaikudi, Tamil Nadu , India.
authors.forename: Kh Dhanachandra
authors.initials: KhD
authors.lastname: Singh
authors.forename: Muthusamy
authors.initials: M
authors.lastname: Karthikeyan
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D004252:DNA Mutational Analysis / Q000379:methods*; D006801:Humans; D008969:Molecular Sequence Data; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D020543:Proteome / Q000235:genetics*; D012084:Renin-Angiotensin System / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D020543:Proteome
keywords: Hypertension; RAAS; SNP; mutation