On the public citation graph

Insights into The Codon Usage Bias of 13 Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Isolates from Different Geo-locations

https://doi.org/10.1101/2020.04.01.019463
0 signed · 89 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.
Claim with ORCID
Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.
See reference health

What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/3-7643-7339-3_1openalex-snapshot
Coronaviridae: a review of coronaviruses and toroviruses
inferredcites →https://doi.org/10.1007/978-0-387-98141-3openalex-snapshot
ggplot2: Elegant Graphics for Data Analysis
inferredcites →https://doi.org/10.1007/978-3-319-24277-4_9openalex-snapshot
Data Analysis
inferredcites →https://doi.org/10.1007/978-3-540-35306-5_10openalex-snapshot
SeqinR 1.0-2: A Contributed Package to the R Project for Statistical Computing Devoted to Biological Sequences Retrieval and Analysis
inferredcites →https://doi.org/10.1007/pl00006384openalex-snapshot
An Evaluation of Measures of Synonymous Codon Usage Bias
inferredcites →https://doi.org/10.1007/s00239-003-2519-1openalex-snapshot
Mammalian Mutation Pressure, Synonymous Codon Choice, and mRNA Degradation
inferredcites →https://doi.org/10.1007/s00239-005-0221-1openalex-snapshot
Evolutionary Basis of Codon Usage and Nucleotide Composition Bias in Vertebrate DNA Viruses
inferredcites →https://doi.org/10.1007/s00705-010-0848-0openalex-snapshot
Analysis of codon usage in bovine viral diarrhea virus
inferredcites →https://doi.org/10.1007/s11033-009-9521-7openalex-snapshot
Analysis of synonymous codon usage in Zea mays
inferredcites →https://doi.org/10.1007/s11262-007-0159-zopenalex-snapshot
Mutation pressure shapes codon usage in the GC-Rich genome of foot-and-mouth disease virus
inferredcites →https://doi.org/10.1007/s11262-008-0296-zopenalex-snapshot
Analysis of synonymous codon usage in classical swine fever virus
inferredcites →https://doi.org/10.1016/0022-2836(82)90515-0openalex-snapshot
A simple method for displaying the hydropathic character of a protein
inferredcites →https://doi.org/10.1016/0378-1119(90)90491-9openalex-snapshot
The ‘effective number of codons’ used in a gene
inferredcites →https://doi.org/10.1016/j.antiviral.2013.12.009openalex-snapshot
The SARS coronavirus nucleocapsid protein – Forms and functions
inferredcites →https://doi.org/10.1016/j.antiviral.2014.06.013openalex-snapshot
Accessory proteins of SARS-CoV and other coronaviruses
inferredcites →https://doi.org/10.1016/j.febslet.2015.08.033openalex-snapshot
Analysis of amino acid and codon usage inParamecium bursaria
inferredcites →https://doi.org/10.1016/j.jviromet.2019.113806openalex-snapshot
Analysis of preferred codon usage in the coronavirus N genes and their implications for genome evolution and vaccine design
inferredcites →https://doi.org/10.1016/j.margen.2016.10.001openalex-snapshot
Genome-wide comparative analysis of codon usage bias and codon context patterns among cyanobacterial genomes
inferredcites →https://doi.org/10.1016/j.meegid.2011.08.025openalex-snapshot
The characteristic of codon usage pattern and its evolution of hepatitis C virus
inferredcites →https://doi.org/10.1016/j.pep.2012.02.013openalex-snapshot
Engineering genes for predictable protein expression
inferredcites →https://doi.org/10.1016/j.str.2004.10.010openalex-snapshot
Structure and Intracellular Targeting of the SARS-Coronavirus Orf7a Accessory Protein
inferredcites →https://doi.org/10.1016/j.virusres.2004.01.006openalex-snapshot
Analysis of synonymous codon usage in SARS Coronavirus and other viruses in the Nidovirales
inferredcites →https://doi.org/10.1016/j.ygeno.2019.02.010openalex-snapshot
Analysis of synonymous codon usage patterns of HPRT1 gene across twelve mammalian species
inferredcites →https://doi.org/10.1016/s0140-6736(20)30251-8openalex-snapshot
Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding
inferredcites →https://doi.org/10.1016/s0168-1702(02)00309-xopenalex-snapshot
The extent of codon usage bias in human RNA viruses and its evolutionary origin
inferredcites →https://doi.org/10.1016/s0378-1119(00)00480-7openalex-snapshot
DNA G+C content of the third codon position and codon usage biases of human genes
inferredcites →https://doi.org/10.1016/s1672-0229(08)60047-9openalex-snapshot
Codon Usage Biases of Transposable Elements and Host Nuclear Genes in Arabidopsis Thaliana and Oryza Sativa
inferredcites →https://doi.org/10.1017/s0016672302006079openalex-snapshot
Neutral effect of recombination on base composition in Drosophila
inferredcites →https://doi.org/10.1038/438575aopenalex-snapshot
Fruit bats as reservoirs of Ebola virus
inferredcites →https://doi.org/10.1038/emi.2016.106openalex-snapshot
Evolution of codon usage in Zika virus genomes is host and vector specific
inferredcites →https://doi.org/10.1038/emi.2016.48openalex-snapshot
Comparative genomic analysis of pre-epidemic and epidemic Zika virus strains for virological factors potentially associated with the rapidly expanding epidemic
inferredcites →https://doi.org/10.1038/nature24039openalex-snapshot
CG dinucleotide suppression enables antiviral defence targeting non-self RNA
inferredcites →https://doi.org/10.1038/s41559-020-1124-7openalex-snapshot
Dissimilation of synonymous codon usage bias in virus–host coevolution due to translational selection
inferredcites →https://doi.org/10.1038/s41591-020-0820-9openalex-snapshot
The proximal origin of SARS-CoV-2
inferredcites →https://doi.org/10.1073/pnas.96.8.4482openalex-snapshot
Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis , Drosophila , and Arabidopsis
inferredcites →https://doi.org/10.1080/07391102.2012.736757openalex-snapshot
Compensatory nature of Chargaff’s second parity rule
inferredcites →https://doi.org/10.1093/bioinformatics/btw647openalex-snapshot
stAIcalc: tRNA adaptation index calculator based on species-specific weights
inferredcites →https://doi.org/10.1093/dnares/dsu017openalex-snapshot
Modelling the Efficiency of Codon–tRNA Interactions Based on Codon Usage Bias
inferredcites →https://doi.org/10.1093/gbe/evr085openalex-snapshot
Reduced Efficacy of Natural Selection on Codon Usage Bias in Selfing Arabidopsis and Capsella Species
inferredcites →https://doi.org/10.1093/molbev/msr121openalex-snapshot
MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
inferredcites →https://doi.org/10.1093/molbev/mss201openalex-snapshot
An Improved Implementation of Effective Number of Codons (Nc)
inferredcites →https://doi.org/10.1093/nar/gkh834openalex-snapshot
Solving the riddle of codon usage preferences: a test for translational selection
inferredcites →https://doi.org/10.1093/nar/gkm577openalex-snapshot
Selection for efficient translation initiation biases codon usage at second amino acid position in secretory proteins
inferredcites →https://doi.org/10.1093/nar/gkn787openalex-snapshot
GtRNAdb: a database of transfer RNA genes detected in genomic sequence
inferredcites →https://doi.org/10.1093/nar/gkp712openalex-snapshot
Selection for minimization of translational frameshifting errors as a factor in the evolution of codon usage
inferredcites →https://doi.org/10.1093/ve/vey021openalex-snapshot
Exploratory re-encoding of yellow fever virus genome: new insights for the design of live-attenuated viruses
inferredcites →https://doi.org/10.1101/gr.2896904openalex-snapshot
Codon usage bias from tRNA's point of view: Redundancy, specialization, and efficient decoding for translation optimization
inferredcites →https://doi.org/10.1111/j.1365-2443.2009.01284.xopenalex-snapshot
Codon usage bias is correlated with gene expression levels in the fission yeast Schizosaccharomyces pombe
inferredcites →https://doi.org/10.1126/science.1118391openalex-snapshot
Bats Are Natural Reservoirs of SARS-Like Coronaviruses
inferredcites →https://doi.org/10.1126/science.1155761openalex-snapshot
Virus Attenuation by Genome-Scale Changes in Codon Pair Bias
inferredcites →https://doi.org/10.1126/science.279.5349.393openalex-snapshot
Characterization of an Avian Influenza A (H5N1) Virus Isolated from a Child with a Fatal Respiratory Illness
inferredcites →https://doi.org/10.1128/aac.02932-15openalex-snapshot
Enhancement of the Replication of Hepatitis C Virus Replicons of Genotypes 1 to 4 by Manipulation of CpG and UpA Dinucleotide Frequencies and Use of Cell Lines Expressing SECL14L2 for Antiviral Resistance Testing
inferredcites →https://doi.org/10.1128/br.35.3.235-241.1971openalex-snapshot
Expression of animal virus genomes
inferredcites →https://doi.org/10.1128/jvi.00508-09openalex-snapshot
Genetic Inactivation of Poliovirus Infectivity by Increasing the Frequencies of CpG and UpA Dinucleotides within and across Synonymous Capsid Region Codons
inferredcites →https://doi.org/10.1128/jvi.00738-06openalex-snapshot
Reduction of the Rate of Poliovirus Protein Synthesis through Large-Scale Codon Deoptimization Causes Attenuation of Viral Virulence by Lowering Specific Infectivity
inferredcites →https://doi.org/10.1128/jvi.70.7.4773-4777.1996openalex-snapshot
The transmissible gastroenteritis coronavirus contains a spherical core shell consisting of M and N proteins
inferredcites →https://doi.org/10.1128/jvi.74.17.8127-8134.2000openalex-snapshot
Characterization of the Coronavirus M Protein and Nucleocapsid Interaction in Infected Cells
inferredcites →https://doi.org/10.1128/jvi.77.1.452-459.2003openalex-snapshot
Genome Variability and Capsid Structural Constraints of Hepatitis A Virus
inferredcites →https://doi.org/10.1128/jvi.80.7.3259-3272.2006openalex-snapshot
Modulation of Poliovirus Replicative Fitness in HeLa Cells by Deoptimization of Synonymous Codon Usage in the Capsid Region
inferredcites →https://doi.org/10.1128/mmbr.69.4.635-664.2005openalex-snapshot
Coronavirus Pathogenesis and the Emerging Pathogen Severe Acute Respiratory Syndrome Coronavirus
inferredcites →https://doi.org/10.1146/annurev-micro-090110-102957openalex-snapshot
Synthetic Poliovirus and Other Designer Viruses: What Have We Learned from Them?
inferredcites →https://doi.org/10.1186/1471-2148-7-1openalex-snapshot
Differential impact of simultaneous migration on coevolving hosts and parasites.
inferredcites →https://doi.org/10.1186/1471-2148-7-226openalex-snapshot
Codon usage in twelve species of Drosophila
inferredcites →https://doi.org/10.1186/1743-422x-10-356openalex-snapshot
Comprehensive analysis of the overall codon usage patterns in equine infectious anemia virus
inferredcites →https://doi.org/10.1186/1743-422x-9-1openalex-snapshot
Antiretroviral activity of 5-azacytidine during treatment of a HTLV-1 positive myelodysplastic syndrome with autoimmune manifestations
inferredcites →https://doi.org/10.1186/1743-422x-9-263openalex-snapshot
Pandemic influenza A virus codon usage revisited: biases, adaptation and implications for vaccine strain development
inferredcites →https://doi.org/10.1371/journal.pone.0002947openalex-snapshot
CRPV Genomes with Synonymous Codon Optimizations in the CRPV E7 Gene Show Phenotypic Differences in Growth and Altered Immunity upon E7 Vaccination
inferredcites →https://doi.org/10.1371/journal.pone.0003808openalex-snapshot
Whole Body Mechanics of Stealthy Walking in Cats
inferredcites →https://doi.org/10.1371/journal.pone.0013431openalex-snapshot
A General Model of Codon Bias Due to GC Mutational Bias
inferredcites →https://doi.org/10.1371/journal.pone.0043111openalex-snapshot
Comparative Analysis of Codon Usage Bias and Codon Context Patterns between Dipteran and Hymenopteran Sequenced Genomes
inferredcites →https://doi.org/10.1371/journal.pone.0051652openalex-snapshot
Contributions of Speed and Accuracy to Translational Selection in Bacteria
inferredcites →https://doi.org/10.1371/journal.pone.0056642openalex-snapshot
Causes and Implications of Codon Usage Bias in RNA Viruses
inferredcites →https://doi.org/10.1371/journal.pone.0085631openalex-snapshot
Mutation and Selection Cause Codon Usage and Bias in Mitochondrial Genomes of Ribbon Worms (Nemertea)
inferredcites →https://doi.org/10.1371/journal.pone.0090905openalex-snapshot
Genome-Wide Analysis of Codon Usage and Influencing Factors in Chikungunya Viruses
inferredcites →https://doi.org/10.1371/journal.pone.0154376openalex-snapshot
Revelation of Influencing Factors in Overall Codon Usage Bias of Equine Influenza Viruses
inferredcites →https://doi.org/10.1371/journal.pone.0194372openalex-snapshot
Genome-wide analysis of codon usage bias in four sequenced cotton species
inferredcites →https://doi.org/10.21105/joss.00905openalex-snapshot
Python Implementation of Codon Adaptation Index
inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot
R: A Language and Environment for Statistical Computing
inferredcites →https://doi.org/10.3389/fmicb.2017.01020openalex-snapshot
Predicting Species-Resolved Macronutrient Acquisition during Succession in a Model Phototrophic Biofilm Using an Integrated ‘Omics Approach
inferredcites →https://doi.org/10.3389/fmicb.2017.01419openalex-snapshot
Comprehensive Analysis of Codon Usage Bias in Seven Epichloë Species and Their Peramine-Coding Genes
inferredcites →https://doi.org/10.3389/fmicb.2019.01347openalex-snapshot
Finding Functional Differences Between Species in a Microbial Community: Case Studies in Wine Fermentation and Kefir Culture
inferredcites →https://doi.org/10.3390/genes6041125openalex-snapshot
Analysis of Codon Usage Patterns in Herbaceous Peony (Paeonia lactiflora Pall.) Based on Transcriptome Data
inferredcites →https://doi.org/10.3390/v10110604openalex-snapshot
Evolution of Codon Usage Bias in Henipaviruses Is Governed by Natural Selection and Is Host-Specific
inferredcites →https://doi.org/10.3390/v12040462openalex-snapshot
Synonymous Dinucleotide Usage: A Codon-Aware Metric for Quantifying Dinucleotide Representation in Viruses
inferredcites →https://doi.org/10.4238/2012.october.17.3openalex-snapshot
Patterns of synonymous codon usage bias in the model grass Brachypodium distachyon
inferredcites →https://doi.org/10.7554/elife.12735openalex-snapshot
Elevation of CpG frequencies in influenza A genome attenuates pathogenicity but enhances host response to infection

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1186/s12985-020-01395-xopenalex-snapshot
Characterization of codon usage pattern in SARS-CoV-2
inferred← citeshttps://doi.org/10.3390/v13010003openalex-snapshot
Natural Selection Plays an Important Role in Shaping the Codon Usage of Structural Genes of the Viruses Belonging to the Coronaviridae Family
inferred← citeshttps://doi.org/10.7717/peerj.13562openalex-snapshot
Natural selection plays a significant role in governing the codon usage bias in the novel SARS-CoV-2 variants of concern (VOC)
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.