Dissecting the dynamics of signaling events in the BMP, WNT, and NODAL cascade during self-organized fate patterning in human gastruloids

Synergy with TGFβ ligands switches WNT pathway dynamics from transient to sustained during human pluripotent cell differentiation

(2019) Joseph Massey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A wave of WNT signaling balanced by secreted inhibitors controls primitive streak formation in micropattern colonies of human embryonic stem cells

(2019) Iain Martyn et al.   DEVELOPMENT

Rapid changes in morphogen concentration control self-organized patterning in human embryonic stem cells

(2019) Idse Heemskerk et al.   eLife

A 3D model of a human epiblast reveals BMP4-driven symmetry breaking

(2019) Mijo Simunovic et al.   NATURE CELL BIOLOGY

Engineered signaling centers for the spatially controlled patterning of human pluripotent stem cells

(2019) Andrea Manfrin et al.   NATURE METHODS

Blastocyst-like structures generated solely from stem cells

(2018) Nicolas C. Rivron et al.   NATURE

Self-assembly of embryonic and two extra-embryonic stem cell types into gastrulating embryo-like structures

(2018) Berna Sozen et al.   NATURE CELL BIOLOGY

Micropattern differentiation of mouse pluripotent stem cells recapitulates embryo regionalized cell fate patterning

(2018) Sophie M Morgani et al.   eLife

Self-organization of a human organizer by combined Wnt and Nodal signalling

(2018) I. Martyn et al.   NATURE

Direct visualization of a native Wnt in vivo reveals that a long-range Wnt gradient forms by extracellular dispersal

(2018) Ariel M Pani et al.   eLife

Self-Renewing Trophoblast Organoids Recapitulate the Developmental Program of the Early Human Placenta

(2018) Sandra Haider et al.   Stem Cell Reports

In Toto Imaging and Reconstruction of Post-Implantation Mouse Development at the Single-Cell Level

(2018) Katie McDole et al.   CELL

Multi-axial self-organization properties of mouse embryonic stem cells into gastruloids

(2018) Leonardo Beccari et al.   NATURE

WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids

(2018) Anna Yoney et al.   eLife

Assembly of embryonic and extraembryonic stem cells to mimic embryogenesis in vitro

(2017) Sarah Ellys Harrison et al.   SCIENCE

A pluripotent stem cell-based model for post-implantation human amniotic sac development

(2017) Yue Shao et al.   Nature Communications

Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

(2016) Sophie Petropoulos et al.   CELL

A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization

(2016) Fred Etoc et al.   DEVELOPMENTAL CELL

Visualization of a short-range Wnt gradient in the intestinal stem-cell niche

(2016) Henner F. Farin et al.   NATURE

A developmental coordinate of pluripotency among mice, monkeys and humans

(2016) Tomonori Nakamura et al.   NATURE

Self-organization of human embryonic stem cells on micropatterns

(2016) Alessia Deglincerti et al.   Nature Protocols

Defining the three cell lineages of the human blastocyst by single-cell RNA-seq

(2015) P. Blakeley et al.   DEVELOPMENT

Activin/Nodal signaling and NANOG orchestrate human embryonic stem cell fate decisions by controlling the H3K4me3 chromatin mark

(2015) Alessandro Bertero et al.   GENES & DEVELOPMENT

Response to Nodal morphogen gradient is determined by the kinetics of target gene induction

(2015) Julien Dubrulle et al.   eLife

Endogenous WNT Signals Mediate BMP-Induced and Spontaneous Differentiation of Epiblast Stem Cells and Human Embryonic Stem Cells

(2015) Dorota Kurek et al.   Stem Cell Reports

Symmetry breaking, germ layer specification and axial organisation in aggregates of mouse embryonic stem cells

(2014) S. C. van den Brink et al.   DEVELOPMENT

A method to recapitulate early embryonic spatial patterning in human embryonic stem cells

(2014) Aryeh Warmflash et al.   NATURE METHODS

Glycogen synthase kinase 3 inhibitors induce the canonical WNT/ -catenin pathway to suppress growth and self-renewal in embryonal rhabdomyosarcoma

(2014) E. Y. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Digit patterning is controlled by a Bmp-Sox9-Wnt Turing network modulated by morphogen gradients

(2014) J. Raspopovic et al.   SCIENCE

Dose-dependent Nodal/Smad signals pattern the early mouse embryo

(2014) Elizabeth J. Robertson   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

The Dynamics of Morphogenesis in the Early Mouse Embryo

(2014) Jaime A. Rivera-Pérez et al.   Cold Spring Harbor Perspectives in Biology

EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments

(2013) Ning Leng et al.   BIOINFORMATICS

Porcn-dependent Wnt signaling is not required prior to mouse gastrulation

(2013) S. Biechele et al.   DEVELOPMENT

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Gene Regulatory Logic for Reading the Sonic Hedgehog Signaling Gradient in the Vertebrate Neural Tube

(2012) Nikolaos Balaskas et al.   CELL

Dynamics of TGF-  signaling reveal adaptive and pulsatile behaviors reflected in the nuclear localization of transcription factor Smad4

(2012) A. Warmflash et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential Diffusivity of Nodal and Lefty Underlies a Reaction-Diffusion Patterning System

(2012) P. Muller et al.   SCIENCE

Wnt Signaling in Mammalian Development: Lessons from Mouse Genetics

(2012) J. Wang et al.   Cold Spring Harbor Perspectives in Biology

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

BRACHYURY and CDX2 Mediate BMP-Induced Differentiation of Human and Mouse Pluripotent Stem Cells into Embryonic and Extraembryonic Lineages

(2011) Andreia S. Bernardo et al.   Cell Stem Cell

ELF5-enforced transcriptional networks define an epigenetically regulated trophoblast stem cell compartment in the human placenta

(2010) Myriam Hemberger et al.   HUMAN MOLECULAR GENETICS

Reaction-Diffusion Model as a Framework for Understanding Biological Pattern Formation

(2010) S. Kondo et al.   SCIENCE

Small molecule–mediated disruption of Wnt-dependent signaling in tissue regeneration and cancer

(2009) Baozhi Chen et al.   Nature Chemical Biology

Making a commitment: cell lineage allocation and axis patterning in the early mouse embryo

(2009) Sebastian J. Arnold et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Structure–activity relationship study of bone morphogenetic protein (BMP) signaling inhibitors

(2008) Gregory D. Cuny et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

BioVenn – a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams

(2008) Tim Hulsen et al.   BMC GENOMICS

NANOG Is a Direct Target of TGFβ/Activin-Mediated SMAD Signaling in Human ESCs

(2008) Ren-He Xu et al.   Cell Stem Cell