Nucleotide Composition
Nucleotide composition of the Zika virus RNA genome and its codon usage
... We previously reported that the unequal nucleotide composition of a viral RNA genome may become even more biased in unpaired domains of the folded RNA molecule. This initial study was performed for HIV-1 ...
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Characterizing the interplay between gene nucleotide composition bias and splicing
... regional nucleotide composition bias, is related to the three-dimensional genome archi- ...the nucleotide composition of genomic re- gions, which in turn has “local” consequences on exon ...
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The biased nucleotide composition of the HIV genome: a constant factor in a highly variable virus
... genome composition, we have compared the sequence composition of approximately 1300 nt of the pol gene of blood plasma virus of 38 untreated Dutch patients MSM (men having sex with men) infected with HIV-1 ...
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Use of Nucleotide Composition Analysis To Infer Hosts for Three Novel Picorna-Like Viruses
... Nucleotide composition analysis of virus ...program Composition Scan in the Simmonic sequence editor, version ...study. Nucleotide sequence accession ...
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iROS-gPseKNC: Predicting replication origin sites in DNA by incorporating dinucleotide position-specific propensity into general pseudo nucleotide composition
... similar nucleotide sequence ...acid composition” [39] or Chou’s PseAAC [40, 41] was developed to deal with protein/peptide ...pseudo nucleotide composition or PseKNC [9, 10, 14, 48, ...
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Evolution of nucleotide composition in the SARS-CoV-2 lineage: Implications for vaccine design
... The Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), which belongs to the Betacoronavirus group, caused a pandemic by inflicting respiratory illness in human populations around the globe. The outbreak caused ...
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Effects of nutrition (herbivore vs carnivore) on energy charge and nucleotide composition inHyas araneus larvae
... ABSTRACT: Growth rate expressed as dry weight, elemental composition (C, N, H), protein content and nucleotide composition (ATP, ADP, AMP, CTP, GTP and UTP) as well as adeno[r] ...
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Nucleotide composition of transposable elements likely contributes to AT/GC compositional homogeneity of teleost fish genomes
... Recent studies on the relative contribution of TEs to genome size in fish [3, 4, 7, 39] have become an import- ant starting point for us to understand the evolution of nucleotide composition. The above ...
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iOri-Human: identify human origin of replication by incorporating dinucleotide physicochemical properties into pseudo nucleotide composition
... this problem, the “pseudo amino acid composition” [58, 59] or Chou’s PseAAC [60–62] was developed to deal with protein/peptide sequences. Ever since PseAAC was proposed, it has penetrated into many biomedicine/ ...
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Correlation between nucleotide composition and folding energy of coding sequences with special attention to wobble bases
... acid composition (sequence), nucleic acid folding energy (structure) and protein structural elements (helix, sheet) is a strong indication that protein-folding informa- tion is present in the redundant exon bases ...
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Analysis of codon usage and nucleotide composition bias in polioviruses
... As we known, the Sabin oral poliovaccine (OPV) was among the best known viral vaccines [18]. It has saved the lives and health of innumerable people, in particular children. However, poliovirus is highly genetically ...
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Gene expression and nucleotide composition are associated with genic methylation level in Oryza sativa
... Based on their observation that methylated and unme- thylated sequences differ in the distributions of hexamer motifs that are related to transcription factor binding sites, Das and colleagues [11] developed HDFINDER, ...
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A unique genetic code change in the mitochondrial genome of the parasitic nematode Radopholus similis
... The complete mt genome of R. similis was amplified in three overlapping fragments, with the complete assembly being 16,791 bp [EMBL:FN313571] (figure 1), which was confirmed by southern blot (additional file 1). With an ...
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Structural and Functional Constraints Limit Options for Cytotoxic T-Lymphocyte Escape in the Immunodominant HLA-B27-Restricted Epitope in Human Immunodeficiency Virus Type 1 Capsid
... their nucleotide composition, with a high content of adenosine (A) in the RNA of HIV-1 ...possible nucleotide substitutions that occur during the replicative process of HIV-1 could additionally bias ...
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Characterization of the Complete Mitochondrial Genomes of Cnaphalocrocis medinalis and Chilo suppressalis (Lepidoptera: Pyralidae)
... The Asiatic leaf roller, C. medinalis, and the rice stem borer, C. suppressalis, are both well-known rice pests widely distributed in the main rice-growing regions of China, Japan, Korea, India, Australia, and other ...
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The Complete Mitochondrial Genome of the Damsel Bug Alloeorhynchus bakeri (Hemiptera: Nabidae)
... Metazoan mt genomes usually present a clear strand bias in nucleotide composition [58, 59], and the strand bias can be measured as AT- and GC-skews [26]. AT- and GC-skews of A. bakeri mt genomes is ...
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Studies on 4S and 5S RNA of HeLa cells
... fore, it seems likely that at least a J;Brt of the differences in nucleotide composition between hybridized and input RNA are due to the proportion of sites for various tRNA species in t[r] ...
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Natural Selection for Nucleotide Usage at Synonymous and Nonsynonymous Sites in Influenza A Virus Genes
... the nucleotide composition of the gene are likely to have ...equilibrium nucleotide fre- quencies due to differences in mutation biases, the nucleotide content in the newly acquired genes ...
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Assessment of New Culture Method for Detection of Borrelia Species from Serum of Lyme Disease Patients
... 21 nucleotide differences from strain B31, 29 differences from ...21 nucleotide differences between ...two nucleotide peaks at the divergent positions if mixed amplicons were ...
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Identification and characterization of single nucleotide polymorphism markers in FADS2 gene associated with olive oil fatty acids composition
... In recent years, several studies showed that the consump- tion of olive oil was correlated with the prevention and therapy for many diseases. In fact, olive oil contains many bioactive molecules that could explain its ...
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