Eddy Kinganda-Lusamaki

Human outbreak detection and best practice MPXV analysis and interpretation with squirrel

This paper introduces squirrel, a tool for analyzing MPXV genomes to detect outbreaks and classify APOBEC3 mutations, aiding public health responses.

Evidence of latency reshapes our understanding of Ebola virus reservoir dynamics

This study models latency in Ebola virus using a novel phylogenetic approach, finding evidence of extended quiescence in the reservoir, which changes understanding of its evolutionary history and geographic spread.

High genetic diversity of mpox virus (MPXV) in three different rodent species in the Democratic Republic of the Congo (DRC)

The paper identifies MPXV diversity in three rodent species in the DRC, showing multiple clades and proximity to human populations.

PrimalScheme: open-source community resources for low-cost viral genome sequencing

PrimalScheme provides open-source tools for designing low-cost viral genome sequencing primers, generating over 67,000 schemes and enabling large-scale genomic surveillance.

Identifying genomic surveillance gaps in Africa for the global public health response to West Nile Virus

The paper identifies gaps in genomic surveillance of West Nile Virus in Africa and proposes strategies to improve public health response.

A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa

This study uses genomic data from 8746 SARS-CoV-2 genomes across 33 African countries to show that most epidemics were initiated by European importations and later driven by local transmission and mobility, leading to the spread of variants of concern.