Predicting the functional consequences of non-synonymous single nucleotide polymorphisms in IL8 gene

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dc.contributor.authorDakal, Tikam Chand
dc.contributor.authorKala, Deepak
dc.contributor.authorDhiman, Gourav
dc.contributor.authorYadav, Vinod
dc.contributor.authorKrokhotin, Andrey
dc.date.accessioned2023-05-02T04:57:24Z
dc.date.available2023-05-02T04:57:24Z
dc.date.issued2017
dc.description.abstractHere we report an in-silico approach for identification, characterization and validation of deleterious non-synonymous SNPs (nsSNPs) in the interleukin-8 gene using three steps. In first step, sequence homology-based genetic analysis of a set of 50 coding SNPs associated with 41 rsIDs using SIFT (Sorting Intolerant from Tolerant) and PROVEAN (Protein Variation Effect Analyzer) identified 23 nsSNPs to be putatively damaging/deleterious in at least one of the two tools used. Subsequently, structurehomology based PolyPhen-2 (Polymorphism Phenotyping) analysis predicted 9 of 23 nsSNPs (K4T, E31A, E31K, S41Y, I55N, P59L, P59S, L70P and V88D) to be damaging. According to the conditional hypothesis for the study, only nsSNPs that score damaging/deleterious prediction in both sequence and structural homology-based approach will be considered as ‘high-confidence’ nsSNPs. In step 2, based on conservation of amino acid residues, stability analysis, structural superimposition, RSMD and docking analysis, the possible structural-functional relationship was ascertained for high-confidence nsSNPs. Finally, in a separate analysis (step 3), the IL-8 deregulation has also appeared to be an important prognostic marker for detection of patients with gastric and lung cancer. This study, for the first time, provided in-depth insights on the effects of amino acid substitutions on IL-8 protein structure, function and disease association.en_US
dc.identifier.urihttp://hdl.handle.net/123456789/1072
dc.language.isoenen_US
dc.publisherScientific Reportsen_US
dc.titlePredicting the functional consequences of non-synonymous single nucleotide polymorphisms in IL8 geneen_US
dc.typeArticleen_US
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