ArticleEvolutionary bioinformatics online2020
Selection On synonymous Mutations Revealed by 1135 Genomes of
Article in Evolutionary bioinformatics online, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 29 citations in OpenAlex.
- Kinetic mechanisms for the sequence dependence of transcriptional errors.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Systematic revelation and meditation on the significance of long exons using representative eukaryotic genomes.BMC genomics · 2025Article
- High allelic diversity in Arabidopsis NLRs is associated with distinct genomic features.EMBO reports · 2024Article
- Ribosome profiling: a powerful tool in oncological research.Biomarker research · 2024Review
- Non-Additive and Asymmetric Allelic Expression ofAnimals : an open access journal from MDPI · 2024Article
- SARS-CoV-2 continuously optimizes its codon usage to adapt to human lung environment.Journal of applied genetics · 2023Article
- High intraspecies allelic diversity inbioRxiv : the preprint server for biology · 2023Article
- Evidence Supporting That C-to-U RNA Editing Is the Major Force That Drives SARS-CoV-2 Evolution.Journal of molecular evolution · 2023Article
- Hepatitis B virus (HBV) codon adapts well to the gene expression profile of liver cancer: an evolutionary explanation for HBV's oncogenic role.Journal of microbiology (Seoul, Korea) · 2022Article
- uORF-Mediated Translational Regulation of ATF4 Serves as an Evolutionarily Conserved Mechanism Contributing to Non-Small-Cell Lung Cancer (NSCLC) and Stress Response.Journal of molecular evolution · 2022Article
- An evolutionarily conserved mechanism that amplifies the effect of deleterious mutations in osteosarcoma.Molecular genetics and genomics : MGG · 2022Article
- Evidence for selection on SARS-CoV-2 RNA translation revealed by the evolutionary dynamics of mutations in UTRs and CDSs.RNA biology · 2022Article
- Mutation profiling of a limbless pig reveals genome-wide regulation of RNA processing related to bone development.Journal of applied genetics · 2021Article
- Machine learning-enabled phenotyping for GWAS and TWAS of WUE traits in 869 field-grown sorghum accessions.Plant physiology · 2021Article
- Article
- Comparative genomic analysis of a naturally born serpentized pig reveals putative mutations related to limb and bone development.BMC genomics · 2021Article
- Context-dependent and -independent selection on synonymous mutations revealed by 1,135 genomes of Arabidopsis thaliana.BMC ecology and evolution · 2021Article
- Synonymous mutations that regulate translation speed might play a non-negligible role in liver cancer development.BMC cancer · 2021Article
- Cost-efficiency tradeoff is optimized in various cancer types revealed by genome-wide analysis.Molecular genetics and genomics : MGG · 2021Article
- GC usage of SARS-CoV-2 genes might adapt to the environment of human lung expressed genes.Molecular genetics and genomics : MGG · 2020Article
Corrections and comments
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Authors and funding
1 author at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Synonymous mutations do not change the amino acid but do change the synonymous codon usage. In genomes of different organisms, the gene conversion process is biased toward GC, which is irrespective of mutation bias. In the coding region, this trend is especially obvious and it is possibly caused by the preference on G/C-ending codons over the A/T-ending ones. If the G/C-ending codons are advantageous, then the synonymous mutations that change A/T to G/C would be "optimal" compared to the opposite ones. In theory, one should observe signals of positive selection on these optimal synonymous mutations. The recently released single-nucleotide polymorphism (SNP) data from the 1001 genome project of
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