Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

In vitro attachment and symmetry breaking of a human embryo model assembled from primed pluripotent stem cells

ABSTRACT: In vitro attachment and symmetry breaking of a human embryo model assembled from primed pluripotent stem cells

PROVIDER: PRJNA836533 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

In vitro attachment and symmetry breaking of a human embryo model assembled from primed pluripotent stem cells

Project description:Human embryonic development after attachment remains elusive due to technical, ethical, and policy challenges of experimenting with early embryonic tissues. We build a model of the post-attachment human embryo by controllably assembling the stem cell model of the human epiblast with stem cell derived extraembryonic tissues. We provide three sets of single cell RNA sequencing data to characterize the system: data from the E10 in vitro attached IVF human embryo, stem cell-derived extraembryonic cells derived by BMP4 induction on soft substrates, and the resulting model of the post-attachment human embryo.

2022-06-02 | GSE202542 | GEO

Symmetry breaking in gastruloid development

Project description:Symmetry breaking in gastruloid development

| PRJNA759809 | ENA

Self-organization and symmetry breaking in intestinal organoid development [scRNA-Seq]

Project description:Intestinal organoids are complex three-dimensional structures that mimic cell type composition and tissue organization of the intestine by recapitulating the self-organizing capacity of cell populations derived from a single stem cell. Crucial in this process is a first symmetry-breaking event, in which only a fraction of identical cells in a symmetrical cyst differentiate into Paneth cells, which in turn generates the stem cell niche and leads to asymmetric structures such as crypts and villi. We here combine a quantitative single-cell gene expression and imaging approach to characterize the development of intestinal organoids from a single cell. We show that intestinal organoid development follows a regeneration process driven by transient Yap1 activation. Cell-to-cell variability in Yap1, emerging in symmetrical cysts, initiates a Notch/Dll1 lateral inhibition event driving the symmetry-breaking event and the formation of the first Paneth cell. Our findings reveal how single cells exposed to a uniform growth-promoting environment have the intrinsic ability to generate emergent, self-organized behavior resulting in the formation of complex multicellular asymmetric structures.

2019-04-25 | GSE115956 | GEO

Self-organization and symmetry breaking in intestinal organoid development [bulk RNA-Seq]

2019-04-25 | GSE115955 | GEO

Self-organization and symmetry breaking in intestinal organoid development

Project description:Self-organization and symmetry breaking in intestinal organoid development

| PRJNA476588 | ENA

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

Project description:The human embryo breaks symmetry to form the anterior-posterior axis of the body. As the embryo elongates along this axis, progenitors in the tailbud give rise to tissues that generate the spinal cord, skeleton, and musculature. This raises the question of how the embryo achieves axial elongation and patterning. While ethics necessitate in vitro studies, the variability of organoid systems has hindered mechanistic insights. Here we developed a bioengineering and machine learning framework that optimizes symmetry breaking by tuning the spatial coupling between human stem cell-derived organoids. This framework enabled the reproducible generation of axially elongating organoids, each possessing a tailbud and neural tube. We discovered that an excitable system composed of WNT/FGF signaling drives elongation through induction of a neuromesodermal progenitor (NMP)-like signaling center. We discovered that instabilities in the excitable system are suppressed by secreted WNT inhibitors. Absence of these inhibitors led to ectopic tailbuds and branches. Our results identify mechanisms governing stable human axial elongation.

2022-12-12 | GSE220472 | GEO

Self-organization and symmetry breaking in intestinal organoid development [scRNA-Seq]

Project description:Self-organization and symmetry breaking in intestinal organoid development [scRNA-Seq]

| PRJNA476590 | ENA

Symmetry breaking of tissue mechanics in wound induced hair follicle regeneration

Project description:Symmetry breaking of tissue mechanics in wound induced hair follicle regeneration

| PRJNA670913 | ENA

Self-organization and symmetry breaking in intestinal organoid development [bulk RNA-Seq]

Project description:Self-organization and symmetry breaking in intestinal organoid development [bulk RNA-Seq]

| PRJNA476589 | ENA

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

Project description:Axial development of mammals is a dynamic process involving several coordinated morphogenetic events, including axial elongation, somitogenesis, and neural tube formation. To gain insight into the signals control the dynamics of human axial morphogenesis, we generated hundreds of axially elongating organoids by inducing anteroposterior symmetry breaking of spatially coupled epithelial cysts derived from human pluripotent stem cells. Each organoid was composed of a neural tube flanked by presomitic mesoderm sequentially segmented into somites. Periodic activation of the somite differentiation gene MESP2 coincided in space and time with anteriorly traveling segmentation clock waves in the presomitic mesoderm of the organoids, recapitulating critical aspects of somitogenesis. Through timed perturbations of organoids, we demonstrated that FGF and WNT signaling play distinct roles in axial elongation and somitogenesis and that FGF signaling gradients drive the segmentation clock waves. By generating and perturbing organoids that robustly recapitulate the architecture and dynamics of multiple axial tissues in human embryos, this work offers a means to dissect complex mechanisms underlying human embryogenesis.

2022-12-12 | GSE220563 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data