Alvin X. Han

Long-term experimental evolution of seasonal influenza A/H3N2 virus reveals diverse evolutionary potential

This study shows that A/H3N2 influenza virus evolves differently in independent human airway cultures, with limited parallelism and novel mutations, suggesting evolutionary paths are influenced by selective context rather than intrinsic constraints.

The receptor binding properties of H5Nx influenza A viruses have evolved to promiscuously bind to avian-type mucin-like O-glycans

This study identifies that H5Nx influenza A viruses bind promiscuously to avian-type mucin-like O-glycans, enhancing their zoonotic potential by binding human tracheal tissues.

Epistasis in the receptor binding domain of contemporary H3N2 viruses that reverted to bind sialylated diLacNAc repeats

This study identifies epistatic interactions in H3N2 influenza viruses that enable reversion to bind sialylated diLacNAc glycans, impacting receptor specificity and vaccine strain selection.

N-glycolylneuraminic acid binding of avian H7 influenza A viruses

The paper investigates how avian H7 influenza A viruses can bind NeuGc through specific mutations, revealing insights into viral adaptation to NeuGc receptors.

Inferring putative transmission clusters with Phydelity

Phydelity identifies transmission clusters in pathogen phylogenies without arbitrary distance thresholds, showing improved purity and lower misclassification in simulations and empirical datasets.

Phylogenetic Clustering by Linear Integer Programming (PhyCLIP)

PhyCLIP provides a statistically principled phylogenetic clustering framework without arbitrary distance thresholds, improving resolution of pathogen subpopulations.