Adam L. Haber

Discovering paracrine regulators of cell type composition from spatial transcriptomics using SPER

This paper introduces SPER, a method to identify paracrine regulators of cell type composition from spatial transcriptomics data, showing it detects genes involved in extracellular secretion and receptor-ligand interactions.

A molecular circuit regulates fate plasticity in emerging and adult AT2 cells

The paper identifies a molecular circuit involving C/EBP and Dlk1 that regulates fate plasticity in AT2 cells during lung development and injury.

Single-cell analysis of human airway epithelium identifies cell type-specific responses to Aspergillus and Coccidioides

This study uses single-cell RNA sequencing to analyze human airway epithelial cell responses to Aspergillus and Coccidioides, revealing distinct stress and cytokine pathways.

Vagal TRPV1+ sensory neurons regulate myeloid cell dynamics and protect against influenza virus infection

This study shows TRPV1+ sensory neurons protect against influenza by modulating myeloid cell responses and reducing immunopathology.

Airway basal stem cells are necessary for the maintenance of functional intraepithelial airway macrophages.

This study shows that airway basal stem cells maintain intraepithelial airway macrophages via Notch signaling, enabling localized allergic inflammation in the trachea but not distal lung tissues.

Integrated analyses of single-cell atlases reveal age, gender, and smoking status associations with cell type-specific expression of mediators of SARS-CoV-2 viral entry and highlights inflammatory programs in putative target cells

Across 1,176,683 airway and lung cells from 22 datasets, ACE2 rises with age, in males and in smokers' multiciliated cells, and is lowest in young children.

Rewiring of the cellular and inter-cellular landscape of the human colon during ulcerative colitis

The paper was withdrawn due to the inclusion of confidential information about a third party.

T helper cells modulate intestinal stem cell renewal and differentiation

This study shows that T helper cells interact with intestinal stem cells via MHCII to regulate their renewal and differentiation, with distinct effects based on Th subtype and cytokine signaling.