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Accessible and highly observable gastrointestinal organoid model systems for studying host-pathogen interactions

Publications associées (172)

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Annotation of spatially resolved single-cell data with STELLAR

Maria Brbic

Accurate cell-type annotation from spatially resolved single cells is crucial to understand functional spatial biology that is the basis of tissue organization. However, current computational methods for annotating spatially resolved single-cell data are t ...

2022

Mechanics of the cellular microenvironment as probed by cells in vivo during zebrafish presomitic mesoderm differentiation

Sangwoo Kim

Tissue morphogenesis, homoeostasis and repair require cells to constantly monitor their three-dimensional microenvironment and adapt their behaviours in response to local biochemical and mechanical cues. Yet the mechanical parameters of the cellular microe ...

2022

Organoids as tools for fundamental discovery and translation-A Keystone Symposia report

Matthias Lütolf

Complex three-dimensional in vitro organ-like models, or organoids, offer a unique biological tool with distinct advantages over two-dimensional cell culture systems, which can be too simplistic, and animal models, which can be too complex and may fail to ...

WILEY2022

Z-REX uncovers a bifurcation in function of Keap1 paralogs

Yimon Aye, Jesse Poganik, Xuyu Liu, Yi Zhao, Kuan-Ting Huang

Studying electrophile signaling is marred by difficulties in parsing changes in pathway flux attributable to on-target, vis-& agrave;-vis off-target, modifications. By combining bolus dosing, knockdown, and Z- REX & mdash;a tool investigating on- target/on ...

eLIFE SCIENCES PUBL LTD2022

Engineering next generation organoids through guided stem cell self-organisation

Mikhail Nikolaev

One of the long-standing goals in the field of tissue engineering is the fabrication of de novo tissues or even organs to provide better tissue models for basic research and drug discovery, and to alleviate a shortage of donor organs in the future. Resear ...

EPFL2021

Developing new tools to study and program cell fate at the single-cell level

Marjan Biocanin

Single-cell transcriptomics (scRNA-seq) started a technological revolution in biology by enabling through the plethora of methods to assess a molecular state of the cell on systems level without the strict necessity of the prior knowledge of the cell state ...

EPFL2021

Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes

Elisa Oricchio, Daniele Tavernari, Stephanie Jocelyne Sungalee, Giovanni Ciriello, Marco Mina

Chromatin compartmentalization reflects biological activity. However, inference of chromatin sub-compartments and compartment domains from chromosome conformation capture (Hi-C) experiments is limited by data resolution. As a result, these have been charac ...

NATURE RESEARCH2021

Capturing Cardiogenesis in Gastruloids

Matthias Lütolf, Romain Guiet, Giuliana Rossi, Andrea Boni, Nicolas Antoine Vincent Broguiere, Mehmet Ugur Girgin

Organoids are powerful models for studying tissue development, physiology, and disease. However, current culture systems disrupt the inductive tissue-tissue interactions needed for the complex morphogenetic processes of native organogenesis. Here, we show ...

CELL PRESS2021

Quantum Sensing of Free Radicals in Primary Human Dendritic Cells

Mayeul Sylvain Chipaux

Free radicals are crucial indicators for stress and appear in all kinds of pathogenic conditions, including cancer, cardiovascular diseases, and infection. However, they are difficult to detect due to their reactivity and low abundance. We use relaxometry ...

AMER CHEMICAL SOC2021

New Stable Cell Lines Derived from the Proximal and Distal Intestine of Rainbow Trout (Oncorhynchus mykiss) Retain Several Properties Observed In Vivo

Kristin Schirmer

We derived two novel cell lines from rainbow trout (RT) proximal (RTpi-MI) and distal intestine (RTdi-MI) and compared them with the previously established continuous cell line RTgutGC. Intestinal stem cells, differentiating and differentiated epithelial c ...

MDPI2021