Donna L. Färber

The Human Gut Cell Atlas v1.0: A Unified, Community-Built Reference of Cellular Diversity Across the Gut

The paper presents the Human Gut Cell Atlas v1.0, a unified reference of gut cell diversity, revealing how tissue structure influences cellular composition and enabling disease and organoid analysis.

Dynamic remodeling of the pancreas immune landscape in obesity.

This study identifies how obesity alters the pancreatic immune landscape by shifting macrophage subsets and enhancing T-cell interactions, contributing to chronic inflammation.

Beyond the blood: Tissue-resident immunity shapes SARS-CoV-2 vaccine antibody responses

The paper analyzes tissue-resident immune responses in vaccinated individuals to show that antibody responses are driven by lymphoid tissue B and CD4 T cells, not blood.

Age determines NK cell fate and tissue compartmentalization to CMV infection

The paper shows that NK cell responses to CMV infection differ between infants and adults, influenced by age and T cell immunity, with infant NK cells exhibiting adaptive-like features and tissue seeding.

The antibacterial factor APOL3 couples lysosomal damage to mitochondrial DNA efflux and type I IFN induction

This study shows APOL3 links lysosomal damage to mitochondrial DNA release and type I IFN production via BAK/BAX pores and cGAS/STING signaling.

Tissue signatures of human macrophages during homeostasis and activation

This study identifies tissue-specific transcriptional and protein profiles of human macrophages in various organs during homeostasis and activation, showing homology to mouse macrophages and responsiveness to cytokine stimuli.

A variational deep-learning approach to modeling memory T cell dynamics

The paper develops a variational deep-learning method to model memory T cell dynamics in mice, revealing phenotypic diversity and long-term heterogeneity in lung-resident TRM cells.

Transcriptional control of T cell tissue adaptation and effector function in infants and adults

This study compares transcriptional profiles of memory T cells in infants and adults to identify age-specific regulatory mechanisms.

Multimodal hierarchical classification of CITE-seq data delineates immune cell states across lineages and tissues

This paper introduces MMoCHi, a multimodal classifier for CITE-seq data that improves immune cell subset annotation by integrating transcriptomic and proteomic data.

The Immune Signatures Data Resource: A compendium of systems vaccinology datasets

The paper introduces the Immune Signatures Data Resource, a compendium of standardized systems vaccinology datasets for comparative vaccine response analysis.

Molecular programs of fibrotic change in aging human lung

The paper identifies molecular and structural changes in aging human lungs that contribute to fibrosis and impair lung function.