Elizabeth Skippington

Dictionary of human intestinal organoid responses to secreted niche factors at single cell resolution

The paper builds a dictionary of human intestinal organoid responses to 81 secreted niche factors using scRNA-seq, mapping perturbations and identifying cell type-specific pathways in an IBD context.

Dysbiosis-associated gut bacterium Ruminococcus gnavus varies at the strain level in ability to utilize key mucin component sialic acid

The paper identifies strain-level variation in Ruminococcus gnavus's ability to metabolize sialic acid, revealing diverse metabolic pathways linked to mucin degradation and potential roles in IBD.

A high-throughput phenotypic screen combined with an ultra-large-scale deep learning-based virtual screening reveals novel scaffolds of antibacterial compounds

This study combines high-throughput screening with deep learning to identify novel antibacterial compounds, achieving a 90X higher hit rate than traditional methods.