Qixin He

GeneFamHunter recovers gene-family members from genome assemblies, outperforming existing methods in identifying divergent and tandemly arrayed genes.

The paper introduces evo3D, an R package for structure-informed evolutionary analysis, enabling spatial haplotype extraction and diverse downstream analyses in 3D structural contexts.

The paper introduces MultiSEED, a framework predicting pathogen strain diversity and turnover by distinguishing transient and established strains across diseases.

The paper models how immune and functional selection shape multigene families in Plasmodium falciparum under varying transmission conditions, showing immune selection favors fast-recombining genes and reduces fitness variation.

This paper uses a multiomics approach to identify and predict allergens in Blomia tropicalis, revealing novel allergens and showing gene expression does not strictly correlate with protein abundance.

The paper investigates how standing chromosomal inversion variation compares to new mutations in promoting adaptive divergence during secondary contact, finding that maladaptive gene flow can reduce the importance of standing inversion variation.