Chase Holdener

This study uses high-resolution spatial transcriptomics to map viral tropism and immune responses in neonatal mouse brains infected with reovirus, revealing spatial patterns of infection and immune module organization.

Smoothie denoises spatial transcriptomics data and constructs co-expression networks to detect gene modules and annotate functions across tissues and conditions.

The paper introduces AIR-SPACE, a method combining spatial transcriptomics and immune receptor sequencing to map adaptive immune responses in lymph nodes post-viral infection, revealing spatial dynamics of immune cell activation and differentiation.

The paper introduces a method to map microbiome-host interactions in the gut at high spatial resolution using in situ polyadenylation and spatial RNA sequencing, revealing microbial biogeography and host-microbe interactions in a mouse model.

This study reports experimental evolution of Halobacterium sp. NRC-1 under acid stress, identifying mutations in arginine transport and catabolism genes associated with acid adaptation.