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Data from: Genomic analysis of codon usage shows influence of mutation pressure, natural selection, and host features on Marburg virus evolution
- 负责人：
- DOI：
- doi:10.5061/dryad.3hc5t
- 摘要：
- ral outbreaks of highly fatal hemorrhagic fever. Codon usage patterns of viruses reflect a series of evolutionary changes that enable viruses to shape thei
Data from: ModelOMatic: fast and automated comparison between RY, nucleotide, amino acid, and codon substitution models
- 负责人：
- DOI：
- doi:10.5061/dryad.gq0pb
- 摘要：
- ers of alignments selecting codon and nucleotide models, and no families selecting RY-based models. In contrast, nearly all alignments from the vertebrate data set
Data from: Improved inference of site-specific positive selection under a generalized parametric codon model when there are multinucleotide mutations
- 负责人：
- 关键词：
- DOI：
- doi:10.5061/dryad.m4dr156
- 摘要：
- s: We developed a general-purpose parametric (GPP) modelling framework for codons. This novel approach allows specification of all possible instantaneous codon
Data from: Deconstruction of archaeal genome depict strategic consensus in core pathways coding sequence assembly
- 负责人：
- DOI：
- doi:10.5061/dryad.sv70f
- 摘要：
- of hierarchical linear models of codon usage, expression pattern and codon pair preference pointed to the fact that, in the archaea there is a trend towards biased use of
Data from: Mitochondrial phylogenomics of early land plants: mitigating the effects of saturation, compositional heterogeneity, and codon-usage bias
- 负责人：
- DOI：
- doi:10.5061/dryad.7b470
- 摘要：
- , by analyzing data modeling compositional bias, and by excluding nucleotide noisy signals due to saturation or codon-usage bias. We caution against relying
Data from: A nutrient-driven tRNA modification alters translational fidelity and genome-wide protein coding across an animal genus
- 负责人：
- DOI：
- doi:10.5061/dryad.1jn88
- 摘要：
- ification levels. In a kinetic model, the known increased affinity of queuosine-modified tRNA for ribosomes increases the accuracy of cognate codons while reducing the accuracy of ne
Data from: Serine codon-usage bias in deep phylogenomics: pancrustacean relationships as a case study
- 负责人：
- DOI：
- doi:10.5061/dryad.7p1k8304
- 摘要：
- and the amino acids-based trees is caused by substitutions within synonymous codon families (especially those of serine—TCN and AGY). We show that different arthropod
Data from: Consistency of VDJ rearrangement and substitution parameters enables accurate B cell receptor sequence annotation
- 负责人：
- DOI：
- doi:10.5061/dryad.149m8
- 摘要：
- that a non-parametric approach to modeling the recombination process could be useful. In our paper, we find that indeed large modern data sets sugge
Data from: A phenotype-genotype codon model for detecting adaptive evolution
- 负责人：
- DOI：
- doi:10.5061/dryad.rb4b420
- 摘要：
- associated with discrete-state phenotype evolution. An episode of adaptation is inferred under standard codon substitution models when there is evidence of
Data from: A pair of nonoptimal codons are necessary for the correct biosynthesis of the Aspergillus nidulans urea transporter, UreA
- 负责人：
- DOI：
- doi:10.5061/dryad.56kv356
- 摘要：
- . In this work, using as model UreA, the Aspergillus nidulans urea transporter, we show that the synonymous mutation of a pair of nonoptimal codons cod
