ReviewFunctional & integrative genomics2008
Applications of computational algorithm tools to identify functional SNPs.
Review in Functional & integrative genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
20 citing papers in PubMed.
- Prognostic Modeling of Deleterious IDUA Mutations L238Q and P385R in Hurler Syndrome Through Molecular Dynamics Simulations.Pharmaceuticals (Basel, Switzerland) · 2025Article
- A computational and structural approach to identify malignant non-synonymous FOXM1 single nucleotide polymorphisms in triple-negative breast cancer.Scientific reports · 2025Article
- Genetic Variants at PRKCG Splice and UTR Sites Promote Cancer Susceptibility by Disrupting Epigenetic and miRNA Regulatory Network.Journal of Cancer · 2024Article
- 3DVizSNP: a tool for rapidly visualizing missense mutations identified in high throughput experiments in iCn3D.BMC bioinformatics · 2023Article
- Screening of Pathogenic Missense Single Nucleotide Variants FromBioinformatics and biology insights · 2022Article
- Exploring the use of molecular dynamics in assessing protein variants for phenotypic alterations.Human mutation · 2019Article
- The in vitro functional analysis of single-nucleotide polymorphisms associated with growth hormone (GH) response in children with GH deficiency.The pharmacogenomics journal · 2019Article
- Genetic variant in SWI/SNF complexes influences hepatocellular carcinoma risk: a new clue for the contribution of chromatin remodeling in carcinogenesis.Scientific reports · 2014Article
- Integrating in silico prediction methods, molecular docking, and molecular dynamics simulation to predict the impact of ALK missense mutations in structural perspective.BioMed research international · 2014Article
- Identification of SNP barcode biomarkers for genes associated with facial emotion perception using particle swarm optimization algorithm.Annals of general psychiatry · 2014Article
- Searching for "monogenic diabetes" in dogs using a candidate gene approach.Canine genetics and epidemiology · 2014Article
- Toll-like receptor (TLR2 and TLR4) polymorphisms and chronic obstructive pulmonary disease.PloS one · 2012Article
- Computational refinement of functional single nucleotide polymorphisms associated with ATM gene.PloS one · 2012Article
- Association between variations in cell cycle genes and idiopathic pulmonary fibrosis.PloS one · 2012Article
- Single nucleotide polymorphisms of Toll-like receptor 4 decrease the risk of development of hepatocellular carcinoma.PloS one · 2011Article
- Path to facilitate the prediction of functional amino acid substitutions in red blood cell disorders--a computational approach.PloS one · 2011Article
- A comprehensive haplotype analysis of the XPC genomic sequence reveals a cluster of genetic variants associated with sensitivity to tobacco-smoke mutagens.Toxicological sciences : an official journal of the Society of Toxicology · 2010Article
- Advances in translational bioinformatics: computational approaches for the hunting of disease genes.Briefings in bioinformatics · 2010Article
- A comprehensive in silico analysis of the functional and structural impact of SNPs in the IGF1R gene.Journal of biomedicine & biotechnology · 2010Article
- New take on comparative immunology: relevance to immunotherapy.Immunotherapy · 2009Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single nucleotide polymorphisms (SNPs) are the most common type of genetic variations in humans. Understanding the functions of SNPs can greatly help to understand the genetics of the human phenotype variation and especially the genetic basis of human complex diseases. The method to identify functional SNPs from a pool, containing both functional and neutral SNPs is challenging by experimental protocols. To explore possible relationships between genetic mutation and phenotypic variation, different computational algorithm tools like Sorting Intolerant from Tolerant, Polymorphism Phenotyping, UTRscan, FASTSNP, and PupaSuite were used for prioritization of high-risk SNPs in coding region (exonic nonsynonymous SNPs) and noncoding regions (intronic and exonic 5' and 3'-untranslated region (UTR) SNPs). In this work, we have analyzed the SNPs that can alter the expression and function of transcriptional factor TP53 as a pipeline and for providing a guide to experimental work. We identified the possible mutations and proposed modeled structure for the mutant proteins and compared them with the native protein. These nsSNPs play a critical role in cancer association studies aiming to explain the disparity in cancer treatment responses as well as to improve the effectiveness of the cancer treatments. Our results endorse the study with in vivo experimental protocols.
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