J. D. Silverman

Changes in the Type 2 diabetes gut mycobiome associate with metformin treatment across populations

This study identifies metformin and T2D as factors influencing gut fungal communities across human populations.

Phosphorylation barcodes direct biased chemokine signaling at CXCR3

The paper shows that CXCR3 chemokines use different phosphorylation barcodes to activate distinct signaling pathways, leading to varied physiological outcomes.

Microbiota responses to different prebiotics are conserved within individuals and associated with habitual fiber intake

The paper investigates how gut microbiota respond to different prebiotics within individuals and links these responses to habitual fiber intake.

Short-chain fatty acid production by gut microbiota from children with obesity is linked to bacterial community composition and prebiotic choice

This study examines SCFA production by gut microbiota from children with obesity in response to different prebiotics, finding significant inter-donor variation and donor-dependent effectiveness.

High-throughput isolation and culture of human gut bacteria with droplet microfluidics

The paper develops a droplet microfluidics platform to isolate and culture human gut bacteria, demonstrating its use in studying metabolic variation and growth kinetics.

Statistical Considerations in the Design and Analysis of Longitudinal Microbiome Studies

This paper reviews statistical challenges in longitudinal microbiome studies and provides guidelines for design and analysis.

Phylofactorization - a graph partitioning algorithm to identify phylogenetic scales of ecological data

This paper introduces Phylofactorization, a graph-partitioning algorithm to identify phylogenetic scales in ecological data, and demonstrates its application to mammalian body mass and gut microbiome studies.