Christos Samakovlis

The paper identifies a novel asthma-associated epithelial differentiation trajectory involving KRT14+ basal cells and hillock-like cells that contributes to airway inflammation and remodelling in childhood-onset asthma.

COSTE embeds spatial relationships into a hierarchical metric space to reveal tissue architecture in spatial omics data, identifying spatially defined cell states and disease-associated patterns.

The paper identifies a regulatory module that controls branch pruning in Drosophila airways by repurposing the branch extension program through Hox gene interference and extrinsic signaling.

The paper defines the Drosophila airway progenitor field through three cooperative regulatory programs and their roles in morphogenesis.

The paper identifies gene-expression gradients along the lung airway axis and shows FGFR-signaling establishes these gradients postnatally.

This study shows that COX4I2 in pericytes drives inflammation and emphysema in COPD by increasing mtROS, and its deletion protects against these effects.

Spapros selects optimal probe sets for targeted spatial transcriptomics to improve cell type identification and spatial variation detection across multiple datasets.

This study maps the spatial organization of the developing human lung using high-parametric protein imaging, revealing cell type composition and temporal changes across five developmental timepoints.

The paper uses scRNA-seq to analyze Fasciola hepatica cells, identifies new cell types and gene expression patterns, and highlights PAK4's role in parasite survival.

This study traces Acta2+ cells in aged mice during lung fibrosis to show lipofibroblasts can reversibly switch to myofibroblasts, with similar patterns observed in humans.

This study identifies Emp as a key regulator of apical membrane morphogenesis in Drosophila airways by mediating endocytosis of luminal cargo proteins.

The paper introduces RRST, a spatial transcriptomics workflow that improves mRNA recovery from low-quality fresh frozen samples, demonstrating its effectiveness across multiple tissue types.

This study shows Fgfr2b signaling is essential for maintaining AT2 cells in adult mouse lungs, with IAAPs acting as potential progenitors.

This study identifies an autocrine role for Hedgehog signaling in regulating epithelial cell proliferation and differentiation in the trachea.

The paper creates a comprehensive topographic atlas of early human lung development, identifying cell states, trajectories, and interactions to understand cell heterogeneity origins.

SCRINSHOT maps cell states in tissue sections at single-cell resolution, showing high correlation with scRNA-Seq data and enabling detailed spatial analysis of cell types.

This paper identifies Yorkie's dual role in regulating tracheal tube length and apical barrier integrity in Drosophila airways through cytoplasmic and transcriptional mechanisms.