A SARS-CoV-2 vaccine candidate would likely match all currently circulating variants

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A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein

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Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins

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NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data

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Projecting the transmission dynamics of SARS-CoV-2 through the postpandemic period

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Characterization of spike glycoprotein of SARS-CoV-2 on virus entry and its immune cross-reactivity with SARS-CoV

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Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus

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Cross-reactive Antibody Response between SARS-CoV-2 and SARS-CoV Infections

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The receptor binding domain of the viral spike protein is an immunodominant and highly specific target of antibodies in SARS-CoV-2 patients

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Mapping person-to-person variation in viral mutations that escape polyclonal serum targeting influenza hemagglutinin

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Importance of Neutralizing Monoclonal Antibodies Targeting Multiple Antigenic Sites on the Middle East Respiratory Syndrome Coronavirus Spike Glycoprotein To Avoid Neutralization Escape

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Recently Identified Mutations in the Ebola Virus-Makona Genome Do Not Alter Pathogenicity in Animal Models

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Naturally Occurring Single Mutations in Ebola Virus Observably Impact Infectivity

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Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree

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Functional mutations in spike glycoprotein of Zaire ebolavirus associated with an increase in infection efficiency

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ModelFinder: fast model selection for accurate phylogenetic estimates

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A Metric on Phylogenetic Tree Shapes

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Functional Characterization of Adaptive Mutations during the West African Ebola Virus Outbreak

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RPANDA: an R package for macroevolutionary analyses on phylogenetic trees

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Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone

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Clinical Sequencing Uncovers Origins and Evolution of Lassa Virus

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Characterizing and Comparing Phylogenies from their Laplacian Spectrum

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Measuring Asymmetry in Time-Stamped Phylogenies

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IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

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A predictive fitness model for influenza

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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

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Detecting Individual Sites Subject to Episodic Diversifying Selection

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A Random Effects Branch-Site Model for Detecting Episodic Diversifying Selection

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FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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GSTand its relatives do not measure differentiation

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Rates of evolutionary change in viruses: patterns and determinants

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The Population Genetics of dN/dS

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