Catherine Lozupone

This study compares the tonsillar microbiome of children with Down syndrome and obstructive sleep apnea to non-DS OSA patients, finding specific microbial shifts in DS tonsils.

This study examines how western versus agrarian diets affect gut microbiome composition and immune function in HIV-positive individuals in rural and urban Zimbabwe.

This study shows that amoxicillin causes long-term gut dysbiosis and reduces type-17 immune tone in the lungs.

DartUniFrac is a fast, scalable algorithm for microbiome analysis that matches the statistical performance of exact UniFrac methods.

KG-Microbe constructs modular knowledge graphs to integrate microbial data, enabling analysis of complex interactions in health and environment.

EXPLANA is a workflow for analyzing microbiome data in cross-sectional and longitudinal studies, identifying meaningful features and generating interactive reports.

This study predicts ecological relationships between human gut bacteria using time-series data from US travelers in Bangladesh, identifying both cooperative and competitive interactions with metabolic and genomic support.

The paper uses a knowledge graph to hypothesize mechanistic links between microbes and disease by analyzing relationships between microbes, genes, and metabolites.

This study identifies green tea compounds in plasma of mice with and without gut microbiomes, showing their metabolism is influenced by microbiome composition and diversity.

The paper evaluates knowledge graphs for mechanistic inference of gut microbiome-disease relationships and highlights the need for semantic constraints and integrated resources.

SCNIC generates correlation networks and identifies modules of correlated features in compositional data, increasing statistical power and revealing microbial relationships.

AMON identifies the origin of metabolites as host, microbial, or environmental to improve integration of microbiome and metabolome data.

VOLARE is a web tool that visualizes microbiome-immune system relationships through interactive regression analysis, enabling domain experts to evaluate candidate results for further experimentation.