Controlling human organoid symmetry breaking reveals signaling gradients drive segmentation clock waves

Controlling organoid symmetry breaking uncovers an excitable system underlying human axial elongation

(2023) Giridhar M. Anand et al.   CELL

Rectified random cell motility as a mechanism for embryo elongation

(2022) Ido Regev et al.   DEVELOPMENT

Periodic formation of epithelial somites from human pluripotent stem cells

(2022) Marina Sanaki-Matsumiya et al.   Nature Communications

Rostrocaudal patterning and neural crest differentiation of human pre-neural spinal cord progenitors in vitro

(2022) Fay Cooper et al.   Stem Cell Reports

Imaging the onset of oscillatory signaling dynamics during mouse embryo gastrulation

(2022) Henning J. Falk et al.   DEVELOPMENT

In vitro systems: a new window to the segmentation clock

(2021) Margarete Diaz Cuadros et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

Understanding axial progenitor biology in vivo and in vitro

(2021) Filip J. Wymeersch et al.   DEVELOPMENT

Bioengineering in vitro models of embryonic development

(2021) Ananya Gupta et al.   Stem Cell Reports

MOrgAna: accessible quantitative analysis of organoids with machine learning

(2021) Nicola Gritti et al.   DEVELOPMENT

In vitro characterization of the human segmentation clock

(2020) Margarete Diaz-Cuadros et al.   NATURE

Single-cell and spatial transcriptomics reveal somitogenesis in gastruloids

(2020) Susanne C. van den Brink et al.   NATURE

Recapitulating the human segmentation clock with pluripotent stem cells

(2020) Mitsuhiro Matsuda et al.   NATURE

Discovering a sparse set of pairwise discriminating features in high dimensional data

(2020) Samuel Melton et al.   BIOINFORMATICS

Mouse embryonic stem cells self-organize into trunk-like structures with neural tube and somites

(2020) Jesse V. Veenvliet et al.   SCIENCE

Controlled modelling of human epiblast and amnion development using stem cells

(2019) Yi Zheng et al.   NATURE

ilastik: interactive machine learning for (bio)image analysis

(2019) Stuart Berg et al.   NATURE METHODS

An In Vitro Human Segmentation Clock Model Derived from Embryonic Stem Cells

(2019) Li-Fang Chu et al.   Cell Reports

Establishing neuronal diversity in the spinal cord: a time and a place

(2019) Andreas Sagner et al.   DEVELOPMENT

Size-reduced embryos reveal a gradient scaling-based mechanism for zebrafish somite formation

(2018) Kana Ishimatsu et al.   DEVELOPMENT

Spatial Fold Change of FGF Signaling Encodes Positional Information for Segmental Determination in Zebrafish

(2018) M. Fethullah Simsek et al.   Cell Reports

Diffusion pseudotime robustly reconstructs lineage branching

(2016) Laleh Haghverdi et al.   NATURE METHODS

Cdx and T Brachyury Co-activate Growth Signaling in the Embryonic Axial Progenitor Niche

(2016) Shilu Amin et al.   Cell Reports

The route to spinal cord cell types: a tale of signals and switches

(2015) Mina Gouti et al.   TRENDS IN GENETICS

Signalling dynamics in vertebrate segmentation

(2014) Alexis Hubaud et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Integration of Signals along Orthogonal Axes of the Vertebrate Neural Tube Controls Progenitor Competence and Increases Cell Diversity

(2014) Noriaki Sasai et al.   PLOS BIOLOGY

Single-Cell-Resolution Imaging of the Impact of Notch Signaling and Mitosis on Segmentation Clock Dynamics

(2012) Emilie A. Delaune et al.   DEVELOPMENTAL CELL

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Vertebrate Segmentation: From Cyclic Gene Networks to Scoliosis

(2011) Olivier Pourquié   CELL

Different types of oscillations in Notch and Fgf signaling regulate the spatiotemporal periodicity of somitogenesis

(2011) Y. Niwa et al.   GENES & DEVELOPMENT

FGF4 and FGF8 comprise the wavefront activity that controls somitogenesis

(2011) L. A. Naiche et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The oscillation of Notch activation, but not its boundary, is required for somite border formation and rostral-caudal patterning within a somite

(2010) M. Oginuma et al.   DEVELOPMENT

A random cell motility gradient downstream of FGF controls elongation of an amniote embryo

(2010) Bertrand Bénazéraf et al.   NATURE

Sonic hedgehog in temporal control of somite formation

(2010) T. P. Resende et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sprouty4, an FGF Inhibitor, Displays Cyclic Gene Expression under the Control of the Notch Segmentation Clock in the Mouse PSM

(2009) Shinichi Hayashi et al.   PLoS One

Signaling Gradients during Paraxial Mesoderm Development

(2009) A. Aulehla et al.   Cold Spring Harbor Perspectives in Biology

Notch Is a Critical Component of the Mouse Somitogenesis Oscillator and Is Essential for the Formation of the Somites

(2009) Zoltan Ferjentsik et al.   PLoS Genetics

Mesp2 and Tbx6 cooperatively create periodic patterns coupled with the clock machinery during mouse somitogenesis

(2008) M. Oginuma et al.   DEVELOPMENT