Yu-Hwai Tsai

Diverse Intestinal Injuries Drive Heterogeneous Transcriptional Responses and Limited Reactivation of Developmental Gene Programs in Human Enteroids

This study examines how human enteroids respond to various injuries, finding limited reactivation of developmental gene programs and highlighting the role of specific signaling pathways.

Suspension-Based Human Esophagoids Recapitulate WNT2B-Dependent Regulation of Esophageal Basal Progenitors

The paper constructs a developmental cell atlas of the human esophagus and develops in vitro models that recapitulate esophageal architecture, revealing WNT2B's role in regulating basal progenitor self-renewal.

Clinical Interventions and Inflammatory Signaling Shape the Transcriptional and Cellular Architecture of the Early Postnatal Lung

The paper constructs a cellular atlas of the early postnatal human lung and identifies two distinct AT2 cell states linked to inflammatory signaling and clinical interventions.

Mapping mesenchymal diversity in the developing human intestine and organoids

The paper maps mesenchymal diversity in the developing human intestine and organoids using single-cell RNA-sequencing and spatial transcriptomics, identifying distinct fibroblast populations and their spatial organization.

A spatially-resolved blueprint of the developing human lung reveals a basal cell population regulated by a WNT-driven niche

The paper creates a spatially-resolved atlas of the developing human lung, identifying a WNT-driven niche that regulates basal cells.

Stable iPSC-derived NKX2-1+ Lung Bud Tip Progenitor Organoids Give Rise to Airway and Alveolar Cell Types

This study develops iPSC-derived lung bud tip progenitor organoids that can be expanded and differentiated into airway or alveolar organoids, showing transcriptional similarity to in vivo progenitors.

Distinct airway progenitor cells drive epithelial heterogeneity in the developing human lung

The paper identifies a novel secretory-like cell type in the developing human lung that gives rise to pulmonary neuroendocrine cells and multiciliated cells.

A Development-Inspired Niche for Homeostatic Human Mini-Intestines

The paper identifies EPIREGULIN as a niche factor that enables spatial organization in human intestinal organoids, mimicking the native intestine's structure and gene expression.

R-SPONDIN2+ Mesenchymal Cells Form the Bud Tip Progenitor Niche During Human Lung Development

The paper identifies R-SPONDIN2-expressing mesenchymal cells as a niche for lung bud tip progenitors using single-cell RNA sequencing and functional experiments.

In vitro and in vivo development of the human intestine at single cell resolution

This study uses scRNA-seq to analyze human intestinal development, identifying cell sources of niche factors and their functional roles in stem cell maintenance.

Differentiation of human intestinal organoids with endogenous vascular endothelial cells

This study enhances the co-differentiation of intestinal organoids with endothelial cells, showing they share an intestinal-specific transcriptional signature with native cells.

An organoid and multi-organ developmental cell atlas reveals multilineage fate specification in the human intestine

The paper uses human intestinal organoids to create a single-cell transcriptome atlas, revealing molecular mechanisms of cell fate specification in the intestine.

Basal stem cell fate specification is mediated by SMAD signaling in the developing human lung

The paper identifies SMAD signaling as a regulator of basal cell fate specification in the developing human lung using single-cell transcriptomics and organoid models.

HNF4 factors control chromatin accessibility and are redundantly required for maturation of the fetal intestine

The paper identifies HNF4 factors as critical for fetal intestinal maturation, showing their role in chromatin accessibility and gene regulation during the embryonic-to-fetal transition.

The Lineage-Specific Transcription Factor CDX2 Navigates Dynamic Chromatin to Control Distinct Stages of Intestine Development

This study shows CDX2 has different chromatin-binding profiles in embryonic and adult intestines, leading to distinct gene activation patterns and developmental outcomes.

Non-adhesive alginate hydrogels support growth of pluripotent stem cell-derived intestinal organoids

This study shows that non-adhesive alginate hydrogels support the growth and differentiation of human intestinal organoids, comparable to Matrigel.

Bacterial Colonization Stimulates A Complex Physiological Response In The Immature Human Intestinal Epithelium

This study uses human intestinal organoids to show microbial colonization induces complex physiological changes in immature human epithelium, including antimicrobial peptide production and mucus maturation.