Synonymous mutations
Quantifying Selection against Synonymous Mutations in HIV-1 env Evolution
... of synonymous mutations, the fraction of synony- mous mutations that are neutral, the escape rate (selection coeffi- cient) of adaptive nonsynonymous mutations, and the rate at which ...
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Synonymous mutations in oncogenesis and apoptosis versus survival unveiled by network modeling
... We therefore employ the approach of network modeling to investigate the possible mechanism of synonymous mutations in cancer development. In detail, we discuss the signaling pathway of tumor necrosis factor ...
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The Age of Nonsynonymous and Synonymous Mutations in Animal mtDNA and Implications for the Mildly Deleterious Theory
... deleterious mutations, the mean age of segregating neutral mutations is greater than the mean age of segregating selected mutations, even in the absence of ...segregating synonymous ...
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Nucleotide Polymorphism at the RpII215 Gene in Drosophila subobscura: Weak Selection on Synonymous Mutations
... derived synonymous mutations can be explained by neutral mutational ...preferred mutations segregate at significantly higher frequency than unpreferred mutations, suggesting the action of ...
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Mutations as Missing Data: Inferences on the Ages and Distributions of Nonsynonymous and Synonymous Mutations
... of mutations on a gene ...the mutations as missing data may in many cases not lead to more efficient methods because of the decrease in mixing caused by the increase in the size of state ...non- ...
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Different rates of (non )synonymous mutations in astrovirus genes; correlation with gene function
... coronavirus, mutations have been associated with isolation and passage in primate cell lines ...of synonymous and non-synonymous substitution in astro- virus ...Random mutations that may be a ...
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A Bayesian MCMC Approach to Assess the Complete Distribution of Fitness Effects of New Mutations: Uncovering the Potential for Adaptive Walks in Challenging Environments
... beneficial mutations; multiple- step mutations are beneficial only when the optimum is distant; and there is a strong genotype 3 environment interac- ...
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A systematic genome-wide analysis of zebrafish protein-coding gene function
... splice mutations in 10,043 ...disruptive mutations in each protein-coding ...splice mutations in new genes gradually decreased over the 1673 sequenced individuals ...of mutations in new genes ...
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Sequence diversification in recessive alleles of two host factor genes suggests adaptive selection for bymovirus resistance in cultivated barley from East Asia
... loss-of-function mutations in EIF4E were found in broad collections of accessions of a number of different crops and related wild plant species (Charron et ...non-synonymous mutations were previously ...
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Systematic Analysis of Enhancer and Critical cis-Acting RNA Elements in the Protein-Encoding Region of the Hepatitis C Virus Genome
... silent mutations in the HCV ...The mutations change Watson-Crick base pairing of the single-stranded RNA genome in the formation of higher-order ...silent mutations affect the structure and function ...
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Genetic diversity of NS5A protein from hepatitis C virus genotype 3a and its relationship to therapy response
... more mutations, NR strains had relatively more non- synonymous ...acid mutations are most commonly deleterious because of the changes they cause in the protein ...non-synonymous ...
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viruses-05-00279.pdf
... the synonymous mutations altered the structure of the pseudoknot, their effects on this structure were evaluated using selective 2’-hydroxyl acylation analyzed by primer extension (SHAPE) analysis (see ...
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Synonymous Rates at the RpII215 Gene of Drosophila: Variation Among Species and Across the Coding Region
... of synonymous substitutions detected in the ...if synonymous mutations behave as nearly ...for synonymous and nonsynonymous substitutions was detected when comparing the ...and ...
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Changes in codon pair bias of human immunodeficiency virus type 1 have profound effects on virus replication in cell culture
... 38 synonymous mutations was not attenuated and displayed a replication capacity simi- lar to that of the wild-type virus in MT-4 cells and ...protease synonymous nucleotide res- ...attenuation, ...
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Genetic polymorphism and natural selection of Duffy binding protein of Plasmodium vivax Myanmar isolates
... non- synonymous to synonymous mutations are observed in known or predicted B- and T-cell epitopes and MHC binding regions of PvDBPII in the Myanmar ...
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Whole-genome sequencing reveals highly specific gene targeting by in vitro assembled Cas9-ribonucleoprotein complexes in Aspergillus fumigatus
... genome mutations among transformants isolated from standard (no Cas9) and Cas9‑mediated integration of a hygromycin deletion ...total mutations to be sim‑ ilar among all three test ...69 mutations, ...
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Drug-resistance profiling and transmission dynamics of multidrug-resistant <em>Mycobacterium tuberculosis</em> in Saudi Arabia revealed by whole genome sequencing
... A larger scale population-based research is, of course, required in the near future through employing WGS to bet- ter understand the nature and route of MTB transmission in Saudi Arabia. Although the WGS technique is ...
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Search | Preprints
... of synonymous/non-synonymous substitution sites in ten CDS regions for bat-CoV-RaTG13, pangolin-CoV-Guangxi, and ...of synonymous/non-synonymous substitution sites in ten CDS regions and five ...
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The Impact of Toxoplasma Gondii on Mitochondrial DNA of Sub-Fertile Men Sperms
... mutation from either exogenous or endogenous sources, like DNA replication errors or environmental insults like smoking or sunlight and they developed the bottleneck sequencing system (BotSeqS) as a simple genome-wide ...
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Positive and Negative Selection on the Human Genome
... S, synonymous SNP; A*/S*, the ratio of amino acid to synonymous SNPs per amino acid-altering and synonymous site, respectively; excess, observed minus expected number of amino acid SNPs, where ...
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